regulatory protein AtoC [Escherichia coli]
Length = 461
Score = 159 bits (398), Expect = 1e-40
Identities = 36/127 (28%), Positives = 70/127 (54%)
Query 1 SAAPSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGM 60
+A + ++DD+ ++R+ + L GF + AL + +V+ DIRMP M
Sbjct 2 TAINRILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFADIHPDVVLMDIRMPEM 61
Query 61 DGLALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEE 120
DG+ +++ + + P+IL+T + ++ AV+A++ GA+D++ KPF D L +RA +
Sbjct 62 DGIKALKEMRSHETRTPVILMTAYAEVETAVEALRCGAFDYVIKPFDLDELNLIVQRALQ 121
Query 121 KRRLVME 127
+ + E
Sbjct 122 LQSMKKE 128
gi|1789809 >gi|1789809 (AE000416) f239; CG Site No. 434; alternate
name ompB; 100 pct identical amino acid sequence and equal length to
OMPR_ECOLI SW: P03025 [Escherichia coli]
Length = 239
Score = 156 bits (390), Expect = 1e-39
Identities = 34/118 (28%), Positives = 65/118 (54%)
Query 5 SVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGLA 64
+ ++DDD LR +++ L GF V S A+A + L+ + +++ D+ +PG DGL+
Sbjct 6 KILVVDDDMRLRALLERYLTEQGFQVRSVANAEQMDRLLTRESFHLMVLDLMLPGEDGLS 65
Query 65 LFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKR 122
+ R++ + +P+I+VT G+ + ++ GA D+I KPF L+ R ++
Sbjct 66 ICRRLRSQSNPMPIIMVTAKGEEVDRIVGLEIGADDYIPKPFNPRELLARIRAVLRRQ 123
gi|2367329 >gi|2367329 (AE000466) transcriptional regulatory
protein cpxR [Escherichia coli]
Length = 232
Score = 152 bits (381), Expect = 1e-38
Identities = 33/120 (27%), Positives = 57/120 (47%), Gaps = 2/120 (1%)
Query 4 PSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGL 63
+ L+DDDR+L +++ LE+ GF V +AL L D +++ D+ MP +G+
Sbjct 2 NKILLVDDDRELTSLLKELLEMEGFNVIVAHDGEQALDLL-DDSIDLLLLDVMMPKKNGI 60
Query 64 ALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKRR 123
+ + P+I++T G V ++ GA D++ KPF LV R +
Sbjct 61 DTLKALRQ-THQTPVIMLTARGSELDRVLGLELGADDYLPKPFNDRELVARIRAILRRSH 119
gi|1790552 >gi|1790552 (AE000483) transcriptional regulatory
protein BasR/PmrA [Escherichia coli]
Length = 222
Score = 152 bits (380), Expect = 1e-38
Identities = 29/124 (23%), Positives = 54/124 (43%)
Query 4 PSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGL 63
+ +++DD L + + + G+ S +A A L A +V+ D+ +P DGL
Sbjct 1 MKILIVEDDTLLLQGLILAAQTEGYACDSVTTARMAEQSLEAGHYSLVVLDLGLPDEDGL 60
Query 64 ALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKRR 123
+I LP++++T + + + GA D++ KPFA + L R +
Sbjct 61 HFLARIRQKKYTLPVLILTARDTLTDKIAGLDVGADDYLVKPFALEELHARIRALLRRHN 120
Query 124 LVME 127
E
Sbjct 121 NQGE 124
gi|1786784 >gi|1786784 (AE000162) f227; This 227 aa ORF is 61 pct
identical (0 gaps) to 225 residues of an approx. 232 aa protein
COPR_PSESM SW: Q02540 [Escherichia coli]
Length = 227
Score = 151 bits (379), Expect = 2e-38
Identities = 27/118 (22%), Positives = 57/118 (47%)
Query 4 PSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGL 63
+ +++D++ + + + L AGF V + ++I DI +P ++G
Sbjct 1 MKLLIVEDEKKTGEYLTKGLTEAGFVVDLADNGLNGYHLAMTGDYDLIILDIMLPDVNGW 60
Query 64 ALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEK 121
+ R + + + +P++L+T G I V+ ++ GA D++ KPFA L+ R +
Sbjct 61 DIVRMLRSANKGMPILLLTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLRR 118
gi|1786599 >gi|1786599 (AE000146) phosphate regulon
transcriptional regulatory protein PhoB [Escherichia coli]
Length = 229
Score = 150 bits (376), Expect = 4e-38
Identities = 27/121 (22%), Positives = 59/121 (48%), Gaps = 2/121 (1%)
Query 3 APSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDG 62
A + +++D+ +R+ + LE GF A+ L+ + +++ D +PG G
Sbjct 2 ARRILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWPDLILLDWMLPGGSG 61
Query 63 LALFRKILA--LDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEE 120
+ + + + D+P++++T G+ V+ ++ GA D+I KPF+ LV +
Sbjct 62 IQFIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMR 121
Query 121 K 121
+
Sbjct 122 R 122
gi|1788280 >gi|1788280 (AE000288) f239; This 239 aa ORF is 53 pct
identical (3 gaps) to 220 residues of an approx. 232 aa protein
COPR_PSESM SW: Q02540 [Escherichia coli]
Length = 239
Score = 150 bits (375), Expect = 6e-38
Identities = 29/122 (23%), Positives = 58/122 (46%), Gaps = 1/122 (0%)
Query 4 PSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGL 63
+ LI+D++ ++ + Q L AG+ + + + + L D ++I DI +PGMDG
Sbjct 17 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGW 76
Query 64 ALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKRR 123
+ + + P+I +T + V+ + GA D++ KPF+ L+ R +
Sbjct 77 QILQTLR-TAKQTPVICLTARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHH 135
Query 124 LV 125
+
Sbjct 136 AL 137
gi|1789402 >gi|1789402 (AE000384) o219; This 219 aa ORF is 60 pct
identical (0 gaps) to 218 residues of an approx. 224 aa protein
YGIX_HAEIN SW: P45337 [Escherichia coli]
Length = 219
Score = 148 bits (370), Expect = 2e-37
Identities = 30/125 (24%), Positives = 54/125 (43%)
Query 4 PSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGL 63
+ LI+DD + ++ L GF+V F + L + VI D+ +PGMDG
Sbjct 1 MRILLIEDDMLIGDGIKTGLSKMGFSVDWFTQGRQGKEALYSAPYDAVILDLTLPGMDGR 60
Query 64 ALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKRR 123
+ R+ P++++T + V+ ++ GA D++ KPFA + +
Sbjct 61 DILREWREKGQREPVLILTARDALAERVEGLRLGADDYLCKPFALIEVAARLEALMRRTN 120
Query 124 LVMEN 128
N
Sbjct 121 GQASN 125
gi|1788394 >gi|1788394 (AE000297) transcriptional regulatory
protein BaeR [Escherichia coli]
Length = 240
Score = 147 bits (368), Expect = 4e-37
Identities = 30/129 (23%), Positives = 64/129 (49%), Gaps = 5/129 (3%)
Query 4 PSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGL 63
P + +++D+ L + + L A + + + + L + +++ D+ +PG DGL
Sbjct 11 PRILIVEDEPKLGQLLIDYLRAASYAPTLISHGDQVLPYVRQTPPDLILLDLMLPGTDGL 70
Query 64 ALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQS----ARRAE 119
L R+I D+P+++VT + + ++ GA D+I KP++ +V RR +
Sbjct 71 TLCREIRR-FSDIPIVMVTAKIEEIDRLLGLEIGADDYICKPYSPREVVARVKTILRRCK 129
Query 120 EKRRLVMEN 128
+R L ++
Sbjct 130 PQRELQQQD 138
gi|1786911 >gi|1786911 (AE000173) f225; 92 pct identical to
KDPE_ECOLI SW: P21866 [Escherichia coli]
Length = 225
Score = 147 bits (368), Expect = 4e-37
Identities = 26/122 (21%), Positives = 56/122 (45%), Gaps = 1/122 (0%)
Query 5 SVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGLA 64
+V +++D++ +R+ ++ LE G V + L + ++I D+ +P DG+
Sbjct 3 NVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATRKPDLIILDLGLPDGDGIE 62
Query 65 LFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKRRL 124
R + +P+I+++ + + A+ GA D+++KPF L R A +
Sbjct 63 FIRDLRQ-WSAVPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALRRHSA 121
Query 125 VM 126
Sbjct 122 TT 123
gi|1790860 >gi|1790860 (AE000510) transcriptional regulatory
protein CreB [Escherichia coli]
Length = 229
Score = 146 bits (364), Expect = 1e-36
Identities = 30/119 (25%), Positives = 59/119 (49%)
Query 5 SVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGLA 64
+V+L++D++ + + L+ GF V F L ++I D+ +P + G
Sbjct 5 TVWLVEDEQGIADTLVYMLQQEGFAVEVFERGLPVLDKARKQVPDVMILDVGLPDISGFE 64
Query 65 LFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKRR 123
L R++LAL P LP++ +T + + ++ GA D++AKPF+ + R + +
Sbjct 65 LCRQLLALHPALPVLFLTARSEEVDRLLGLEIGADDYVAKPFSPREVCARVRTLLRRVK 123
gi|1787375 >gi|1787375 (AE000213) transcriptional regulatory
protein PhoP [Escherichia coli]
Length = 223
Score = 144 bits (361), Expect = 2e-36
Identities = 31/118 (26%), Positives = 58/118 (48%)
Query 4 PSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGL 63
V +++D+ LR ++ ++ AG V A EA L+ I I D+ +P DGL
Sbjct 1 MRVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHIPDIAIVDLGLPDEDGL 60
Query 64 ALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEK 121
+L R+ + D LP++++T V+ + GA D++ KPF + ++ + +
Sbjct 61 SLIRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRR 118
gi|1790299 >gi|1790299 (AE000462) f469; 100 pct identical to
NTRC_ECOLI SW: P06713; CG Site No. 702 [Escherichia coli]
Length = 469
Score = 144 bits (359), Expect = 4e-36
Identities = 48/113 (42%), Positives = 72/113 (63%)
Query 6 VFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGLAL 65
V+++DDD +R +++ L AG T ++F + E L L++ +++SDIRMPGMDGLAL
Sbjct 6 VWVVDDDSSIRWVLERALAGAGLTCTTFENGAEVLEALASKTPDVLLSDIRMPGMDGLAL 65
Query 66 FRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRA 118
++I P LP+I++T H D+ AV A Q GA+D++ KPF D V RA
Sbjct 66 LKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERA 118
gi|1790437 >gi|1790437 (AE000473) transcriptional regulatory
protein hydg [Escherichia coli]
Length = 441
Score = 141 bits (353), Expect = 2e-35
Identities = 35/118 (29%), Positives = 64/118 (53%)
Query 6 VFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGLAL 65
+ ++DDD +Q L G+ V+ S +AL + +V+ D+RM MDG+A
Sbjct 8 ILVVDDDISHCTILQALLRGWGYNVALANSGRQALEQVREQVFDLVLCDVRMAEMDGIAT 67
Query 66 FRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKRR 123
++I AL+P +P++++T + + AV+A++ GA D++ KP D L + +A
Sbjct 68 LKEIKALNPAIPVLIMTAYSSVETAVEALKTGALDYLIKPLDFDNLQATLEKALAHTH 125
gi|1788548 >gi|1788548 (AE000311) sensor protein RcsC
[Escherichia coli]
Length = 933
Score = 141 bits (352), Expect = 3e-35
Identities = 33/120 (27%), Positives = 56/120 (46%)
Query 4 PSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGL 63
+ ++DD R+ + L G+ + +AL LS + IV+SD+ MP MDG
Sbjct 809 MMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNHIDIVLSDVNMPNMDGY 868
Query 64 ALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKRR 123
L ++I L LP+I VT + + ++ G ++KP D + Q+ E+ R
Sbjct 869 RLTQRIRQLGLTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTLTLYAERVR 928
gi|1790863 >gi|1790863 (AE000510) aerobic respiration control
protein ArcA [Escherichia coli]
Length = 238
Score = 140 bits (351), Expect = 4e-35
Identities = 31/122 (25%), Positives = 56/122 (45%), Gaps = 1/122 (0%)
Query 4 PSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGL 63
P + +++D+ R ++ E G+ V E LS +VI DI +PG +GL
Sbjct 4 PHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSEYDINLVIMDINLPGKNGL 63
Query 64 ALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKRR 123
L R++ ++ ++ +TG + + ++ GA D+I KPF L AR +
Sbjct 64 LLARELRE-QANVALMFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLSRTM 122
Query 124 LV 125
+
Sbjct 123 NL 124
gi|1787473 >gi|1787473 (AE000220) nitrate/nitrite response
regulator protein NarL [Escherichia coli]
Length = 216
Score = 136 bits (340), Expect = 7e-34
Identities = 25/125 (20%), Positives = 57/125 (45%), Gaps = 2/125 (1%)
Query 5 SVFLIDDDRDLRKAMQQTLELAGFT--VSSFASATEALAGLSADFAGIVISDIRMPGMDG 62
++ LIDD LR ++Q + +A V ++ + + + +++ D+ MPGM+G
Sbjct 8 TILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNG 67
Query 63 LALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKR 122
L K+ +++ + V A++ GA ++ K + L+++ +A
Sbjct 68 LETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGE 127
Query 123 RLVME 127
++ E
Sbjct 128 MVLSE 132
gi|1788713 >gi|1788713 (AE000325) putative sensor protein evgs
precursor [Escherichia coli]
Length = 1197
Score = 136 bits (340), Expect = 7e-34
Identities = 35/131 (26%), Positives = 58/131 (43%), Gaps = 7/131 (5%)
Query 4 PSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGL 63
S+ + DD R +++ L L G+ V +AL +S ++I+D+ MP MDG
Sbjct 959 LSILIADDHPTNRLLLKRQLNLLGYDVDEATDGVQALHKVSMQHYDLLITDVNMPNMDGF 1018
Query 64 ALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAAD-------RLVQSAR 116
L RK+ + LP+ +T + + + G + KP D +L Q A
Sbjct 1019 ELTRKLREQNSSLPIWGLTANAQANEREKGLSCGMNLCLFKPLTLDVLKTHLSQLHQVAH 1078
Query 117 RAEEKRRLVME 127
A + R L +E
Sbjct 1079 IAPQYRHLDIE 1089
gi|1788905 >gi|1788905 (AE000341) hypothetical protein in glnB
5'region [Escherichia coli]
Length = 444
Score = 133 bits (331), Expect = 8e-33
Identities = 46/117 (39%), Positives = 67/117 (56%)
Query 5 SVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGLA 64
+ L+DDD L K + L G++V + S E L L+ + +VISD+RM MDG+
Sbjct 7 HLLLVDDDPGLLKLLGLRLTSEGYSVVTAESGAEGLRVLNREKVDLVISDLRMDEMDGMQ 66
Query 65 LFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEK 121
LF +I + P +P+I++T HG IP AV A Q G + F+ KP D L Q+ A E+
Sbjct 67 LFAEIQKVQPGMPVIILTAHGSIPDAVAATQQGVFSFLTKPVDKDALYQAIDDALEQ 123
gi|1789149 >gi|1789149 (AE000362) sensor protein BarA
[Escherichia coli]
Length = 918
Score = 132 bits (330), Expect = 1e-32
Identities = 31/121 (25%), Positives = 49/121 (39%), Gaps = 2/121 (1%)
Query 3 APSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDG 62
A +V +DD+ K + LE V S +A+ +++ DI+MP MDG
Sbjct 667 AMTVMAVDDNPANLKLIGALLEDMVQHVELCDSGHQAVERAKQMPFDLILMDIQMPDMDG 726
Query 63 LALFRKILA--LDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEE 120
+ I P+I VT H + + G D++AKP +RL R +
Sbjct 727 IRACELIHQLPHQQQTPVIAVTAHAMAGQKEKLLGAGMSDYLAKPIEEERLHNLLLRYKP 786
Query 121 K 121
Sbjct 787 G 787
gi|1788521 >gi|1788521 (AE000309) nitrate/nitrite response
regulator protein NarP [Escherichia coli]
Length = 215
Score = 131 bits (328), Expect = 2e-32
Identities = 25/124 (20%), Positives = 51/124 (40%), Gaps = 2/124 (1%)
Query 6 VFLIDDDRDLRKAMQQTLELA--GFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGL 63
V ++DD +R+ ++Q LEL V+ A+ + +++ D+ M GM GL
Sbjct 9 VMIVDDHPLMRRGVRQLLELDPGSEVVAEAGDGASAIDLANRLDIDVILLDLNMKGMSGL 68
Query 64 ALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKRR 123
+ +I++T I GA ++ K + L+++ R + +
Sbjct 69 DTLNALRRDGVTAQIIILTVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGSK 128
Query 124 LVME 127
+ E
Sbjct 129 VFSE 132
gi|1787229 >gi|1787229 (AE000201) torCAD operon transcriptional
regulatory protein TorR [Escherichia coli]
Length = 230
Score = 130 bits (324), Expect = 5e-32
Identities = 28/115 (24%), Positives = 51/115 (44%), Gaps = 1/115 (0%)
Query 5 SVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGLA 64
+ +++D+ + +Q G+TVS AS + +++ DI +P +GL
Sbjct 4 HIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIMQNQSVDLILLDINLPDENGLM 63
Query 65 LFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAE 119
L R + + +ILVTG D + ++ GA D++ KP LV +
Sbjct 64 LTRALRER-STVGIILVTGRSDRIDRIVGLEMGADDYVTKPLELRELVVRVKNLL 117
gi|1786838 >gi|1786838 (AE000167) transcriptional regulator CriR
[Escherichia coli]
Length = 226
Score = 128 bits (319), Expect = 2e-31
Identities = 23/127 (18%), Positives = 62/127 (48%), Gaps = 2/127 (1%)
Query 1 SAAPSVFLIDDDRDLRKAMQQTLE-LAGF-TVSSFASATEALAGLSADFAGIVISDIRMP 58
+A ++ +++D+ L + + + + GF + + +A + G+++ D +P
Sbjct 2 TAPLTLLIVEDETPLAEMHAEYIRHIPGFSQILLAGNLAQARMMIERFKPGLILLDNYLP 61
Query 59 GMDGLALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRA 118
G+ L +++ ++ T D+ +A++ G +D++ KP A +RL Q+ R
Sbjct 62 DGRGINLLHELVQAHYPGDVVFTTAASDMETVSEAVRCGVFDYLIKPIAYERLGQTLTRF 121
Query 119 EEKRRLV 125
+++ ++
Sbjct 122 RQRKHML 128
gi|1788222 >gi|1788222 (AE000284) 23.9 kD protein in uvrC-sdiA
intergenic region [Escherichia coli]
Length = 218
Score = 124 bits (310), Expect = 2e-30
Identities = 33/126 (26%), Positives = 64/126 (50%), Gaps = 2/126 (1%)
Query 5 SVFLIDDDRDLRKAMQQTLE-LAGF-TVSSFASATEALAGLSADFAGIVISDIRMPGMDG 62
+V L+DD +R +++ LE + G V + +A+ + +V+ D+ MPG+ G
Sbjct 3 NVLLVDDHELVRAGIRRILEDIKGIKVVGEASCGEDAVKWCRTNAVDVVLMDMSMPGIGG 62
Query 63 LALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKR 122
L RKI D+ +I++T H + P+ + +Q GA +++K A +V + R +
Sbjct 63 LEATRKIARSTADVKIIMLTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVYSGQ 122
Query 123 RLVMEN 128
R + +
Sbjct 123 RYIASD 128
gi|1787893 >gi|1787893 (AE000256) o242; 100 pct identical to GB:
ECU41101_1 ACCESSION: U41101; alternate name urpT; GTG start
[Escherichia coli]
Length = 242
Score = 124 bits (309), Expect = 3e-30
Identities = 25/118 (21%), Positives = 51/118 (43%), Gaps = 1/118 (0%)
Query 4 PSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGL 63
++ ++DD ++ + L V+ +A + + +V+ DI +PG DG+
Sbjct 5 NTIVFVEDDAEVGSLIAAYLAKHDMQVTVEPRGDQAEETILRENPDLVLLDIMLPGKDGM 64
Query 64 ALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEK 121
+ R + A P++L+T + A++ GA D+I K L+ R +
Sbjct 65 TICRDLRAKWSG-PIVLLTSLDSDMNHILALEMGACDYILKTTPPAVLLARLRLHLRQ 121
gi|1788191 >gi|1788191 (AE000282) chemotaxis protein CheY
[Escherichia coli]
Length = 129
Score = 124 bits (308), Expect = 4e-30
Identities = 40/121 (33%), Positives = 57/121 (47%), Gaps = 3/121 (2%)
Query 4 PSVFLIDDDRDLRKAMQQTLELAGFT-VSSFASATEALAGLSADFAGIVISDIRMPGMDG 62
++DD +R+ ++ L+ GF V +AL L A G VISD MP MDG
Sbjct 6 LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGGYGFVISDWNMPNMDG 65
Query 63 LALFRKILA--LDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEE 120
L L + I A LP+++VT + A Q GA ++ KPF A L + + E
Sbjct 66 LELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIFE 125
Query 121 K 121
K
Sbjct 126 K 126
gi|1787487 >gi|1787487 (AE000222) Hnr protein [Escherichia coli]
Length = 337
Score = 122 bits (304), Expect = 1e-29
Identities = 26/115 (22%), Positives = 50/115 (42%), Gaps = 1/115 (0%)
Query 6 VFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGLAL 65
+ +++D++ R + G T A +AL L ++I DI MP M+GL L
Sbjct 10 ILIVEDEQVFRSLLDSWFSSLGATTVLAADGVDALELLGGFTPDLMICDIAMPRMNGLKL 69
Query 66 FRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPF-AADRLVQSARRAE 119
I P+++++ ++ +A++ G D + KP +RL +
Sbjct 70 LEHIRNRGDQTPVLVISATENMADIAKALRLGVEDVLLKPVKDLNRLREMVFACL 124
gi|1790102 >gi|1790102 (AE000444) transcriptional regulatory
protein uhpa [Escherichia coli]
Length = 196
Score = 116 bits (287), Expect = 1e-27
Identities = 36/126 (28%), Positives = 56/126 (43%), Gaps = 5/126 (3%)
Query 5 SVFLIDDDRDLRKAMQQTLELAG--FTVSSFASATEALAGLSADFAGIVISDIRMPGMDG 62
+V LIDD +R Q L L V+ F S EALAGL + I DI MP + G
Sbjct 3 TVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISG 62
Query 63 LALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKR 122
L L ++ + I+++ H + QA+ GA F++K + D L+ +
Sbjct 63 LELLSQL---PKGMATIMLSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGG 119
Query 123 RLVMEN 128
+ +
Sbjct 120 CYLTPD 125
gi|1789603 >gi|1789603 (AE000400) aerobic respiration control
sensor protein arcb [Escherichia coli]
Length = 776
Score = 116 bits (287), Expect = 1e-27
Identities = 26/119 (21%), Positives = 50/119 (41%), Gaps = 4/119 (3%)
Query 3 APSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDG 62
A +V L++D + LE G +V + AL +V+ DI++P M G
Sbjct 523 ALNVLLVEDIELNVIVARSVLEKLGNSVDVAMTGKAALEMFKPGEYDLVLLDIQLPDMTG 582
Query 63 LALFRKILALDPD---LPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRA 118
L + R++ P P++ +T + + + G D ++KP + L ++
Sbjct 583 LDISRELTKRYPREDLPPLVALTA-NVLKDKQEYLNAGMDDVLSKPLSVPALTAMIKKF 640
gi|1788724 >gi|1788724 (AE000326) o244; This 244 aa ORF is 87 pct
identical (1 gap) to 183 residues of an approx. 272 aa protein
MRKE_KLEPN SW: P21649 [Escherichia coli]
Length = 244
Score = 114 bits (283), Expect = 3e-27
Identities = 23/117 (19%), Positives = 51/117 (42%), Gaps = 4/117 (3%)
Query 4 PSVFLIDDDRDLRKAMQQTLELAGF--TVSSFASATEALAGLSADFAGIVISDIRMPGMD 61
V +++D+ ++ + ++ V +F + L L + + DI +P +D
Sbjct 1 MKVIIVEDEFLAQQELSWLIKEHSQMEIVGTFDDGLDVLKFLQHNRVDAIFLDINIPSLD 60
Query 62 GLALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRA 118
G+ L + I ++ +T AV+A + A+D+I KP+ R+ ++
Sbjct 61 GVLLAQNISQFAHKPFIVFITAW--KEHAVEAFELEAFDYILKPYQESRITGMLQKL 115
gi|2367130 >gi|2367130 (AE000301) f244; 100 pct identical to
YEHT_ECOLI SW: P33356; joins 2 ORFs from earlier version [Escherichia
coli]
Length = 244
Score = 110 bits (274), Expect = 4e-26
Identities = 27/120 (22%), Positives = 57/120 (47%), Gaps = 5/120 (4%)
Query 5 SVFLIDDDRDLRKAMQQTLELAGFT--VSSFASATEALAGLSADFAGIVISDIRMPGMDG 62
V ++DD+ R+ ++ L+ V ++A E + + ++ DI+MP + G
Sbjct 8 KVLIVDDEPLARENLRVFLQEQSDIEIVGECSNAVEGIGAVHKLRPDVLFLDIQMPRISG 67
Query 63 LALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKR 122
L + + DP+ +V A++A ++ A+D++ KP RL ++ R ++R
Sbjct 68 LEMVGML---DPEHRPYIVFLTAFDEYAIKAFEEHAFDYLLKPIDEARLEKTLARLRQER 124
gi|1788712 >gi|1788712 (AE000325) putative positive transcription
regulator EvgA [Escherichia coli]
Length = 204
Score = 110 bits (273), Expect = 5e-26
Identities = 21/124 (16%), Positives = 46/124 (36%), Gaps = 1/124 (0%)
Query 4 PSVFLIDDDRDLRKAMQQTLELAGFTV-SSFASATEALAGLSADFAGIVISDIRMPGMDG 62
+ +IDD A++ L + + A+ + IVI D+ +PG++G
Sbjct 1 MNAIIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVETLKPDIVIIDVDIPGVNG 60
Query 63 LALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKR 122
+ + + +I+V+ D GA F++K + ++ + A+
Sbjct 61 IQVLETLRKRQYSGIIIIVSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGY 120
Query 123 RLVM 126
Sbjct 121 CYFP 124
gi|1788546 >gi|1788546 (AE000310) regulator of capsule synthesis
B component [Escherichia coli]
Length = 216
Score = 109 bits (271), Expect = 9e-26
Identities = 27/129 (20%), Positives = 56/129 (42%), Gaps = 5/129 (3%)
Query 4 PSVFLIDDDRDLRKAMQQTLEL--AGFTVSSFASATEALAGLSADFAGIVISDIRMPG-- 59
+V + DD + ++++LE V F +T + L A ++I+D+ MPG
Sbjct 4 MNVIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNLPKLDAHVLITDLSMPGDK 63
Query 60 -MDGLALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRA 118
DG+ L + I P L +I++T + + + + + K A L ++
Sbjct 64 YGDGITLIKYIKRHFPSLSIIVLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAAL 123
Query 119 EEKRRLVME 127
++ ++ E
Sbjct 124 QKGKKFTPE 132
gi|1790566 >gi|1790566 (AE000485) hypothetical 27.4 kD protein in
dcub-lysu intergenic region [Escherichia coli]
Length = 239
Score = 109 bits (271), Expect = 9e-26
Identities = 27/125 (21%), Positives = 55/125 (43%), Gaps = 4/125 (3%)
Query 5 SVFLIDDDRDLRKAMQQTL-ELAGFTVSSFASATEALAGL---SADFAGIVISDIRMPGM 60
+V +IDDD + + ++ + ++ GF AS E + S +++ DI M
Sbjct 3 NVLIIDDDAMVAELNRRYVAQIPGFQCCGTASTLEKAKEIIFNSDTPIDLILLDIYMQKE 62
Query 61 DGLALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEE 120
+GL L + +I+++ D ++ G D++ KPF A R ++ +
Sbjct 63 NGLDLLPVLHNARCKSDVIVISSAADAATIKDSLHYGVVDYLIKPFQASRFEEALTGWRQ 122
Query 121 KRRLV 125
K+ +
Sbjct 123 KKMAL 127
gi|1786747 >gi|1786747 (AE000159) fimbriae Z protein [Escherichia
coli]
Length = 210
Score = 105 bits (260), Expect = 2e-24
Identities = 23/126 (18%), Positives = 50/126 (39%), Gaps = 2/126 (1%)
Query 5 SVFLIDDDRDLRKAMQQTLELAG--FTVSSFASATEALAGLSADFAGIVISDIRMPGMDG 62
SV ++D +R +++ L+ V + L ++I DI +PG DG
Sbjct 5 SVIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYLRTRPVDLIIMDIDLPGTDG 64
Query 63 LALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKR 122
++I + + ++ ++ + A +AIQ GA F++K + + + +
Sbjct 65 FTFLKRIKQIQSTVKVLFLSSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGY 124
Query 123 RLVMEN 128
Sbjct 125 TFFPSE 130
gi|1787227 >gi|1787227 (AE000201) sensor protein TorS, histidine
protein kinase [Escherichia coli]
Length = 904
Score = 100 bits (247), Expect = 6e-23
Identities = 25/120 (20%), Positives = 50/120 (40%), Gaps = 1/120 (0%)
Query 4 PSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLS-ADFAGIVISDIRMPGMDG 62
+ LI+D+ ++ + L+ +G + + +A +AL L ++ + D +P +DG
Sbjct 672 LRLLLIEDNPLTQRITIEMLKTSGAQIVAVGNAAQALETLQNSEPFAAALVDFDLPDIDG 731
Query 63 LALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKR 122
+ L R++ P L +I + H Q I KP + L Q + +
Sbjct 732 ITLARQLAQQYPSLVLIGFSAHVIDETLRQRTSSLFRGIIPKPVPREVLGQLLAHYLQLQ 791
gi|1788192 >gi|1788192 (AE000282) protein-glutamate
methylesterase [Escherichia coli]
Length = 349
Score = 98.5 bits (242), Expect = 2e-22
Identities = 28/106 (26%), Positives = 51/106 (47%), Gaps = 7/106 (6%)
Query 5 SVFLIDDDRDLRKAMQQTLELAGFT--VSSFASATEALAGLSADFAGIVISDIRMPGMDG 62
V +DD +R+ M + + V++ A + ++ D+ MP MDG
Sbjct 5 RVLSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIKKFNPDVLTLDVEMPRMDG 64
Query 63 LALFRKILALDPDLPMIL---VTGHGDIPMAVQAIQDGAYDFIAKP 105
L K++ L P +P+++ +TG G ++A++ GA DF+ KP
Sbjct 65 LDFLEKLMRLRP-MPVVMVSSLTGKGSEVT-LRALELGAIDFVTKP 108
BLASTP 2.0.2 [Sep-3-1997]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A.
Schäffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman
(1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= receiver domain of R. meliloti DctD (128 letters)
SAAPSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAG
IVISDIRMPGMDGLALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAY
DFIAKPFAADRLVQSARRAEEKRRLVMEN
Database: E. coli genomic CDS translations
4257 sequences; 1,351,301 total letters
function end_set(value) { alert(self.document.PSI_BLAST.PSI_END2.value);
self.document.PSI_BLAST.PSI_END2.value = value; }
Results of PSI-Blast iteration 2
Sorted after the fact by BTN.
CPU time: 0.56 user secs. 0.12 sys. secs 0.68 total secs.
Database: E. coli genomic CDS translations
Posted date: Sep 12, 1997 11:54 PM
Number of letters in database: 1,351,301
Number of sequences in database: 4257
Lambda K H
0.318 0.159 0.450
Gapped
Lambda K H
0.270 0.0557 0.230
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 372630
Number of Sequences: 4257
Number of extensions: 16891
Number of successful extensions: 157
Number of sequences better than 10: 69
Number of HSP's better than 10.0 without gapping: 53
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 69
Number of HSP's gapped (non-prelim): 73
length of query: 128
length of database: 1351301
effective HSP length: 43
effective length of query: 85
effective length of database: 1168250
effective search space: 99301250
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.8 bits)
X3: 64 (24.9 bits)
S1: 41 (21.4 bits)
S2: 49 (23.3 bits)