BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 023786
(277 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1VIC|A Chain A, Crystal Structure Of Cmp-kdo Synthetase
pdb|1VIC|B Chain B, Crystal Structure Of Cmp-kdo Synthetase
Length = 262
Score = 177 bits (448), Expect = 7e-45, Method: Compositional matrix adjust.
Identities = 100/224 (44%), Positives = 138/224 (61%), Gaps = 10/224 (4%)
Query: 53 IIPARFASSRFEGKPLVNILGKPMIQRTWERSKLATTLDHLVVATDDEKIAECCQQFGAD 112
IIPARFASSR GKPL +I GKPMIQ +E++ L + +++ATD+E +A+ + FGA+
Sbjct: 6 IIPARFASSRLPGKPLADIKGKPMIQHVFEKA-LQSGASRVIIATDNENVADVAKSFGAE 64
Query: 113 VIMTSESCRNGTERCNEALQKLE-KKYDIVVNIQGDEPLIEPEIIDGVVKALQAAPDAVF 171
V MTS + +GTER E ++KL +I+VNIQGDEPLI P I+ V L +
Sbjct: 65 VCMTSVNHNSGTERLAEVVEKLAIPDNEIIVNIQGDEPLIPPVIVRQVADNLAKFNVNMA 124
Query: 172 STAVTSLKPEDAFDPNRVKCVVDNHGYAIYFSRGLIPYNKSGKVNPQ--------FPYLL 223
S AV E+ F+PN VK + D GY +YFSR +IPY++ +N Q YL
Sbjct: 125 SLAVKIHDAEELFNPNAVKVLTDKDGYVLYFSRSVIPYDRDQFMNLQDVQKVQLSDAYLR 184
Query: 224 HLGIQSYDSNFLKIYPGLHPTPLQLEEDLEQLKVLENGYKMKVQ 267
H+GI +Y + F+K Y PT L+ E LEQL+VL NG ++ V+
Sbjct: 185 HIGIYAYRAGFIKQYVQWAPTQLENLEKLEQLRVLYNGERIHVE 228
>pdb|1VH3|A Chain A, Crystal Structure Of Cmp-kdo Synthetase
pdb|1VH3|B Chain B, Crystal Structure Of Cmp-kdo Synthetase
pdb|1VH3|C Chain C, Crystal Structure Of Cmp-kdo Synthetase
Length = 262
Score = 171 bits (432), Expect = 6e-43, Method: Compositional matrix adjust.
Identities = 98/224 (43%), Positives = 134/224 (59%), Gaps = 10/224 (4%)
Query: 53 IIPARFASSRFEGKPLVNILGKPMIQRTWERSKLATTLDHLVVATDDEKIAECCQQFGAD 112
IIPARFASSR GKPL +I GKP IQ +E++ L + +++ATD+E +A+ + FGA+
Sbjct: 6 IIPARFASSRLPGKPLADIKGKPXIQHVFEKA-LQSGASRVIIATDNENVADVAKSFGAE 64
Query: 113 VIMTSESCRNGTERCNEALQKLE-KKYDIVVNIQGDEPLIEPEIIDGVVKALQAAPDAVF 171
V TS + +GTER E ++KL +I+VNIQGDEPLI P I+ V L
Sbjct: 65 VCXTSVNHNSGTERLAEVVEKLAIPDNEIIVNIQGDEPLIPPVIVRQVADNLAKFNVNXA 124
Query: 172 STAVTSLKPEDAFDPNRVKCVVDNHGYAIYFSRGLIPYNKS--------GKVNPQFPYLL 223
S AV E+ F+PN VK + D GY +YFSR +IPY++ KV YL
Sbjct: 125 SLAVKIHDAEELFNPNAVKVLTDKDGYVLYFSRSVIPYDRDQFXNLQDVQKVQLSDAYLR 184
Query: 224 HLGIQSYDSNFLKIYPGLHPTPLQLEEDLEQLKVLENGYKMKVQ 267
H+GI +Y + F+K Y PT L+ E LEQL+VL NG ++ V+
Sbjct: 185 HIGIYAYRAGFIKQYVQWAPTQLENLEKLEQLRVLYNGERIHVE 228
>pdb|3DUV|A Chain A, Crystal Structure Of 3-Deoxy-Manno-Octulosonate
Cytidylyltransferase From Haemophilus Influenzae
Complexed With The Substrate 3-Deoxy-Manno-Octulosonate
In The- Configuration
pdb|3DUV|B Chain B, Crystal Structure Of 3-Deoxy-Manno-Octulosonate
Cytidylyltransferase From Haemophilus Influenzae
Complexed With The Substrate 3-Deoxy-Manno-Octulosonate
In The- Configuration
Length = 262
Score = 170 bits (431), Expect = 7e-43, Method: Compositional matrix adjust.
Identities = 98/224 (43%), Positives = 134/224 (59%), Gaps = 10/224 (4%)
Query: 53 IIPARFASSRFEGKPLVNILGKPMIQRTWERSKLATTLDHLVVATDDEKIAECCQQFGAD 112
IIPARFASSR GKPL +I GKP IQ +E++ L + +++ATD+E +A+ + FGA+
Sbjct: 6 IIPARFASSRLPGKPLADIKGKPXIQHVFEKA-LQSGASRVIIATDNENVADVAKSFGAE 64
Query: 113 VIMTSESCRNGTERCNEALQKLE-KKYDIVVNIQGDEPLIEPEIIDGVVKALQAAPDAVF 171
V TS + +GTER E ++KL +I+VNIQGDEPLI P I+ V L
Sbjct: 65 VCXTSVNHNSGTERLAEVVEKLAIPDNEIIVNIQGDEPLIPPVIVRQVADNLAKFNVNXA 124
Query: 172 STAVTSLKPEDAFDPNRVKCVVDNHGYAIYFSRGLIPYNKS--------GKVNPQFPYLL 223
S AV E+ F+PN VK + D GY +YFSR +IPY++ KV YL
Sbjct: 125 SLAVKIHDAEELFNPNAVKVLTDKDGYVLYFSRSVIPYDRDQFXNLQDVQKVQLSDAYLR 184
Query: 224 HLGIQSYDSNFLKIYPGLHPTPLQLEEDLEQLKVLENGYKMKVQ 267
H+GI +Y + F+K Y PT L+ E LEQL+VL NG ++ V+
Sbjct: 185 HIGIYAYRAGFIKQYVQWAPTQLENLEKLEQLRVLYNGERIHVE 228
>pdb|3OAM|A Chain A, Crystal Structure Of Cytidylyltransferase From Vibrio
Cholerae
pdb|3OAM|B Chain B, Crystal Structure Of Cytidylyltransferase From Vibrio
Cholerae
pdb|3OAM|C Chain C, Crystal Structure Of Cytidylyltransferase From Vibrio
Cholerae
pdb|3OAM|D Chain D, Crystal Structure Of Cytidylyltransferase From Vibrio
Cholerae
Length = 252
Score = 167 bits (424), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 94/219 (42%), Positives = 132/219 (60%), Gaps = 6/219 (2%)
Query: 53 IIPARFASSRFEGKPLVNILGKPMIQRTWERSKLATTLDHLVVATDDEKIAECCQQFGAD 112
+IPAR+ S+R GKPL +I GKPMIQ +E++ A D +++ATDDE++ + Q FG
Sbjct: 6 VIPARYQSTRLPGKPLADIGGKPMIQWVYEQAMQAGA-DRVIIATDDERVEQAVQAFGGV 64
Query: 113 VIMTSESCRNGTERCNEALQKLEKKYD-IVVNIQGDEPLIEPEIIDGVVKALQAAPDAVF 171
V MTS + ++GTER E + K+ D IVVN+QGDEPLI P II V L A +
Sbjct: 65 VCMTSPNHQSGTERLAEVVAKMAIPADHIVVNVQGDEPLIPPAIIRQVADNLAACSAPMA 124
Query: 172 STAVTSLKPEDAFDPNRVKCVVDNHGYAIYFSRGLIPYNKS--GKVNPQF--PYLLHLGI 227
+ AV + F+PN VK + D GYA+YFSR IP+++ K + P L H+GI
Sbjct: 125 TLAVEIEDEAEVFNPNAVKVITDKSGYALYFSRATIPWDRDNFAKADKAIVQPLLRHIGI 184
Query: 228 QSYDSNFLKIYPGLHPTPLQLEEDLEQLKVLENGYKMKV 266
+Y + F+ Y P+ L+ E LEQL+VL +G K+ V
Sbjct: 185 YAYRAGFINTYLDWQPSQLEKIECLEQLRVLWHGEKIHV 223
>pdb|3K8D|A Chain A, Crystal Structure Of E. Coli Lipopolysaccharide Specific
Cmp-Kdo Synthetase In Complex With Ctp And 2-Deoxy-Kdo
pdb|3K8D|B Chain B, Crystal Structure Of E. Coli Lipopolysaccharide Specific
Cmp-Kdo Synthetase In Complex With Ctp And 2-Deoxy-Kdo
pdb|3K8D|C Chain C, Crystal Structure Of E. Coli Lipopolysaccharide Specific
Cmp-Kdo Synthetase In Complex With Ctp And 2-Deoxy-Kdo
pdb|3K8D|D Chain D, Crystal Structure Of E. Coli Lipopolysaccharide Specific
Cmp-Kdo Synthetase In Complex With Ctp And 2-Deoxy-Kdo
pdb|3K8E|C Chain C, Crystal Structure Of E. Coli Lipopolysaccharide Specific
Cmp-Kdo Synthetase
pdb|3K8E|D Chain D, Crystal Structure Of E. Coli Lipopolysaccharide Specific
Cmp-Kdo Synthetase
pdb|3K8E|A Chain A, Crystal Structure Of E. Coli Lipopolysaccharide Specific
Cmp-Kdo Synthetase
pdb|3K8E|B Chain B, Crystal Structure Of E. Coli Lipopolysaccharide Specific
Cmp-Kdo Synthetase
Length = 264
Score = 161 bits (407), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 93/221 (42%), Positives = 130/221 (58%), Gaps = 6/221 (2%)
Query: 51 VGIIPARFASSRFEGKPLVNILGKPMIQRTWERSKLATTLDHLVVATDDEKIAECCQQFG 110
V IIPAR+AS+R GKPLV+I GKPMI ER++ + + ++VATD E +A + G
Sbjct: 20 VVIIPARYASTRLPGKPLVDINGKPMIVHVLERAR-ESGAERIIVATDHEDVARAVEAAG 78
Query: 111 ADVIMTSESCRNGTERCNEALQKLEKKYD-IVVNIQGDEPLIEPEIIDGVVKALQAAPDA 169
+V MT ++GTER E ++K D ++VN+QGDEP+I II V L
Sbjct: 79 GEVCMTRADHQSGTERLAEVVEKCAFSDDTVIVNVQGDEPMIPATIIRQVADNLAQRQVG 138
Query: 170 VFSTAVTSLKPEDAFDPNRVKCVVDNHGYAIYFSRGLIPYNK----SGKVNPQFPYLLHL 225
+ + AV E+AF+PN VK V+D GYA+YFSR IP+++ G +L HL
Sbjct: 139 MATLAVPIHNAEEAFNPNAVKVVLDAEGYALYFSRATIPWDRDRFAEGLETVGDNFLRHL 198
Query: 226 GIQSYDSNFLKIYPGLHPTPLQLEEDLEQLKVLENGYKMKV 266
GI Y + F++ Y P+PL+ E LEQL+VL G K+ V
Sbjct: 199 GIYGYRAGFIRRYVNWQPSPLEHIEMLEQLRVLWYGEKIHV 239
>pdb|3JTJ|A Chain A, 3-Deoxy-Manno-Octulosonate Cytidylyltransferase From
Yersinia Pestis
Length = 253
Score = 154 bits (389), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 88/219 (40%), Positives = 125/219 (57%), Gaps = 6/219 (2%)
Query: 51 VGIIPARFASSRFEGKPLVNILGKPMIQRTWERSKLATTLDHLVVATDDEKIAECCQQFG 110
+ IIPAR+AS+R GKPL +I GKP + ER+ LA+ D ++VATD + + + G
Sbjct: 7 IAIIPARYASTRLPGKPLADIAGKPXVVHVXERA-LASGADRVIVATDHPDVVKAVEAAG 65
Query: 111 ADVIMTSESCRNGTERCNEALQKLE-KKYDIVVNIQGDEPLIEPEIIDGVVKALQAAPDA 169
+V +T ++GTER E ++ DI+VN+QGDEPL+ P II V L A
Sbjct: 66 GEVCLTRADHQSGTERLAEVIEHYGFADDDIIVNVQGDEPLVPPVIIRQVADNLAACSAG 125
Query: 170 VFSTAVTSLKPEDAFDPNRVKCVVDNHGYAIYFSRGLIPYNKS----GKVNPQFPYLLHL 225
+ AV E+AF+PN VK V D GYA+YFSR IP+ + K +L H+
Sbjct: 126 XATLAVPIASSEEAFNPNAVKVVXDAQGYALYFSRATIPWERERFAQSKETIGDCFLRHI 185
Query: 226 GIQSYDSNFLKIYPGLHPTPLQLEEDLEQLKVLENGYKM 264
GI +Y + F++ Y P+ L+ E LEQL+VL G K+
Sbjct: 186 GIYAYRAGFIRRYVNWAPSQLEQIELLEQLRVLWYGEKI 224
>pdb|1VH1|A Chain A, Crystal Structure Of Cmp-Kdo Synthetase
pdb|1VH1|B Chain B, Crystal Structure Of Cmp-Kdo Synthetase
pdb|1VH1|C Chain C, Crystal Structure Of Cmp-Kdo Synthetase
pdb|1VH1|D Chain D, Crystal Structure Of Cmp-Kdo Synthetase
Length = 256
Score = 154 bits (388), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 91/221 (41%), Positives = 126/221 (57%), Gaps = 6/221 (2%)
Query: 51 VGIIPARFASSRFEGKPLVNILGKPMIQRTWERSKLATTLDHLVVATDDEKIAECCQQFG 110
V IIPAR+AS+R GKPLV+I GKP I ER++ + + ++VATD E +A + G
Sbjct: 4 VVIIPARYASTRLPGKPLVDINGKPXIVHVLERAR-ESGAERIIVATDHEDVARAVEAAG 62
Query: 111 ADVIMTSESCRNGTERCNEALQKLEKKYD-IVVNIQGDEPLIEPEIIDGVVKALQAAPDA 169
+V T ++GTER E ++K D ++VN+QGDEP I II V L
Sbjct: 63 GEVCXTRADHQSGTERLAEVVEKCAFSDDTVIVNVQGDEPXIPATIIRQVADNLAQRQVG 122
Query: 170 VFSTAVTSLKPEDAFDPNRVKCVVDNHGYAIYFSRGLIPYNK----SGKVNPQFPYLLHL 225
+ AV E+AF+PN VK V+D GYA+YFSR IP+++ G +L HL
Sbjct: 123 XATLAVPIHNAEEAFNPNAVKVVLDAEGYALYFSRATIPWDRDRFAEGLETVGDNFLRHL 182
Query: 226 GIQSYDSNFLKIYPGLHPTPLQLEEDLEQLKVLENGYKMKV 266
GI Y + F++ Y P+PL+ E LEQL+VL G K+ V
Sbjct: 183 GIYGYRAGFIRRYVNWQPSPLEHIEXLEQLRVLWYGEKIHV 223
>pdb|1H6J|A Chain A, The Three-Dimensional Structure Of Capsule-Specific
Cmp:2-Keto-3-Deoxy-Manno-Octonic Acid Synthetase From
Escherichia Coli
pdb|1H6J|B Chain B, The Three-Dimensional Structure Of Capsule-Specific
Cmp:2-Keto-3-Deoxy-Manno-Octonic Acid Synthetase From
Escherichia Coli
pdb|1H7E|A Chain A, The Structure Of Cmp:2-Keto-3-Deoxy-Manno-Octonic Acid
Synthetase And Of Its Complexes With Substrates And
Substrate Analogues, Apo-Enzyme
pdb|1H7E|B Chain B, The Structure Of Cmp:2-Keto-3-Deoxy-Manno-Octonic Acid
Synthetase And Of Its Complexes With Substrates And
Substrate Analogues, Apo-Enzyme
pdb|1H7F|A Chain A, The Structure Of Cmp:2-Keto-3-Deoxy-Manno-Octonic Acid
Synthetase And Of Its Complexes With Substrates And
Substrate Analogues, Cmp Complex
pdb|1H7F|B Chain B, The Structure Of Cmp:2-Keto-3-Deoxy-Manno-Octonic Acid
Synthetase And Of Its Complexes With Substrates And
Substrate Analogues, Cmp Complex
pdb|1H7G|A Chain A, The Structure Of Cmp:2-Keto-3-Deoxy-Manno-Octonic Acid
Synthetase And Of Its Complexes With Substrates And
Substrate Analogues, Ctp Mg2+ Complex
pdb|1H7G|B Chain B, The Structure Of Cmp:2-Keto-3-Deoxy-Manno-Octonic Acid
Synthetase And Of Its Complexes With Substrates And
Substrate Analogues, Ctp Mg2+ Complex
pdb|1H7H|A Chain A, The Structure Of Cmp:2-Keto-3-Deoxy-Manno-Octonic Acid
Synthetase And Of Its Complexes With Substrates And
Substrate Analogues, Cdp Complex
pdb|1H7H|B Chain B, The Structure Of Cmp:2-Keto-3-Deoxy-Manno-Octonic Acid
Synthetase And Of Its Complexes With Substrates And
Substrate Analogues, Cdp Complex
pdb|1H7T|A Chain A, The Structure Of Cmp:2-Keto-3-Deoxy-Manno-Octonic Acid
Synthetase And Of Its Complexes With Substrates And
Substrate Analogues, Here Complex With Cmp-Neuac,
Cmp-Neuac Complex
pdb|1H7T|B Chain B, The Structure Of Cmp:2-Keto-3-Deoxy-Manno-Octonic Acid
Synthetase And Of Its Complexes With Substrates And
Substrate Analogues, Here Complex With Cmp-Neuac,
Cmp-Neuac Complex
pdb|1GQ9|A Chain A, The Structure Of Cmp:2-Keto-3-Deoxy-Manno-Octonic Acid
Synthetase Complexed With Ctp At 100k
pdb|1GQ9|B Chain B, The Structure Of Cmp:2-Keto-3-Deoxy-Manno-Octonic Acid
Synthetase Complexed With Ctp At 100k
pdb|1GQC|A Chain A, The Structure Of Cmp:2-Keto-3-Deoxy-Manno-Octonic Acid
Synthetase Complexed With Cmp-Kdo At 100k
pdb|1GQC|B Chain B, The Structure Of Cmp:2-Keto-3-Deoxy-Manno-Octonic Acid
Synthetase Complexed With Cmp-Kdo At 100k
Length = 245
Score = 153 bits (386), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 80/218 (36%), Positives = 130/218 (59%), Gaps = 5/218 (2%)
Query: 48 SRVVGIIPARFASSRFEGKPLVNILGKPMIQRTWERSKLATTLDHLVVATDDEKIAECCQ 107
S+ V +IPAR+ SSR GKPL++I+GKPMIQ +ER+ + + VATDD ++ + Q
Sbjct: 1 SKAVIVIPARYGSSRLPGKPLLDIVGKPMIQHVYERALQVAGVAEVWVATDDPRVEQAVQ 60
Query: 108 QFGADVIMTSESCRNGTERCNEALQKLEKKYDIVVNIQGDEPLIEPEIIDGVVKALQAAP 167
FG IMT +GT+R E + K+E DI +N+QGDEP+I P ++ +++ ++ P
Sbjct: 61 AFGGKAIMTRNDHESGTDRLVEVMHKVEA--DIYINLQGDEPMIRPRDVETLLQGMRDDP 118
Query: 168 DAVFSTAVTSLKPEDAFDPNRVKCVVDNHGYAIYFSRGLIPYNKSGKVNPQFPYLLHLGI 227
+T ++ +A +P+ VK VV+ A+YFSR IPY ++ + + YL H+GI
Sbjct: 119 ALPVATLCHAISAAEAAEPSTVKVVVNTRQDALYFSRSPIPYPRNAE---KARYLKHVGI 175
Query: 228 QSYDSNFLKIYPGLHPTPLQLEEDLEQLKVLENGYKMK 265
+Y + L+ Y L + + E LEQL+++ G ++
Sbjct: 176 YAYRRDVLQNYSQLPESMPEQAESLEQLRLMNAGINIR 213
>pdb|4FCU|A Chain A, 1.9 Angstrom Crystal Structure Of
3-Deoxy-Manno-Octulosonate Cytidylyltransferase (Kdsb)
From Acinetobacter Baumannii Without His- Tag Bound To
The Active Site
Length = 253
Score = 150 bits (379), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 89/221 (40%), Positives = 128/221 (57%), Gaps = 8/221 (3%)
Query: 53 IIPARFASSRFEGKPLVNILGKPMIQRTWERSKLATTLDHLVVATDDEKIAECCQQFGAD 112
+IPARF+SSR GKPL+ I +PMI R +++K D L VATDDE+IAE C+ G D
Sbjct: 5 VIPARFSSSRLPGKPLLLIHDRPMILRVVDQAKKVEGFDDLCVATDDERIAEICRAEGVD 64
Query: 113 VIMTSESCRNGTERCNEALQ-KLEKKYDIVVNIQGDEPLIEPEIIDGVVKALQAAPDAVF 171
V++TS +GT+R +E + K DI+VN+QGDEPL+ +++ V K L P+
Sbjct: 65 VVLTSADHPSGTDRLSEVARIKGWDADDIIVNVQGDEPLLPAQLVQQVAKLLVDKPNCSM 124
Query: 172 STAVTSLKPEDAFDPNR-VKCVVDNHGYAIYFSRGLIPYNKSGKVNPQFPYL-----LHL 225
ST + D F + VK V+ A+YFSR IPY++ G + P L HL
Sbjct: 125 STLCEPIHALDEFQRDSIVKVVMSKQNEALYFSRATIPYDRDGAKRDE-PTLHTQAFRHL 183
Query: 226 GIQSYDSNFLKIYPGLHPTPLQLEEDLEQLKVLENGYKMKV 266
G+ +Y + L+ Y L+ E LEQL+VLENG+++ +
Sbjct: 184 GLYAYRVSLLQEYVTWEMGKLEKLESLEQLRVLENGHRIAI 224
>pdb|3POL|A Chain A, 2.3 Angstrom Crystal Structure Of
3-deoxy-manno-octulosonate Cytidylyltransferase (kdsb)
From Acinetobacter Baumannii
Length = 276
Score = 150 bits (378), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 89/221 (40%), Positives = 128/221 (57%), Gaps = 8/221 (3%)
Query: 53 IIPARFASSRFEGKPLVNILGKPMIQRTWERSKLATTLDHLVVATDDEKIAECCQQFGAD 112
+IPARF+SSR GKPL+ I +PMI R +++K D L VATDDE+IAE C+ G D
Sbjct: 28 VIPARFSSSRLPGKPLLLIHDRPMILRVVDQAKKVEGFDDLCVATDDERIAEICRAEGVD 87
Query: 113 VIMTSESCRNGTERCNEALQ-KLEKKYDIVVNIQGDEPLIEPEIIDGVVKALQAAPDAVF 171
V++TS +GT+R +E + K DI+VN+QGDEPL+ +++ V K L P+
Sbjct: 88 VVLTSADHPSGTDRLSEVARIKGWDADDIIVNVQGDEPLLPAQLVQQVAKLLVDKPNCSM 147
Query: 172 STAVTSLKPEDAFDPNR-VKCVVDNHGYAIYFSRGLIPYNKSGKVNPQFPYL-----LHL 225
ST + D F + VK V+ A+YFSR IPY++ G + P L HL
Sbjct: 148 STLCEPIHALDEFQRDSIVKVVMSKQNEALYFSRATIPYDRDGAKRDE-PTLHTQAFRHL 206
Query: 226 GIQSYDSNFLKIYPGLHPTPLQLEEDLEQLKVLENGYKMKV 266
G+ +Y + L+ Y L+ E LEQL+VLENG+++ +
Sbjct: 207 GLYAYRVSLLQEYVTWEMGKLEKLESLEQLRVLENGHRIAI 247
>pdb|3TQD|A Chain A, Structure Of The 3-Deoxy-D-Manno-Octulosonate
Cytidylyltransferase (Kdsb) From Coxiella Burnetii
Length = 256
Score = 134 bits (336), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 84/219 (38%), Positives = 125/219 (57%), Gaps = 8/219 (3%)
Query: 53 IIPARFASSRFEGKPLVNILGKPMIQRTWERSKLATTLDHLVVATDDEKIAECCQQFGAD 112
IIPARF S+R GK LV+I GKP IQ +E S + + + +V+ATDD++I + + FGA
Sbjct: 13 IIPARFDSTRLPGKALVDIAGKPXIQHVYE-SAIKSGAEEVVIATDDKRIRQVAEDFGAV 71
Query: 113 VIMTSESCRNGTERCNEALQKLEKKYD-IVVNIQGDEPLIEPEIIDGVVKALQAAPDAVF 171
V TS ++GTER EA L + D I+V +QGDEPLI P+ I + + L +
Sbjct: 72 VCXTSSDHQSGTERIAEAAVALGFEDDEIIVCLQGDEPLIPPDAIRKLAEDLDEHDNVKV 131
Query: 172 STAVTSLKPEDA-FDPNRVKCVVDNHGYAIYFSRGLIPYNK---SGKVNPQF--PYLLHL 225
++ T + D F+P+ K V++ YA+YFS IP+ + S K N Q + H+
Sbjct: 132 ASLCTPITEVDELFNPHSTKVVLNRRNYALYFSHAPIPWGRDTFSDKENLQLNGSHYRHV 191
Query: 226 GIQSYDSNFLKIYPGLHPTPLQLEEDLEQLKVLENGYKM 264
GI +Y FL+ Y P + E LEQL++L +G ++
Sbjct: 192 GIYAYRVGFLEEYLSWDACPAEKXEALEQLRILWHGGRI 230
>pdb|2Y6P|A Chain A, Evidence For A Two-Metal-Ion-Mechanism In The
Kdo-Cytidylyltransferase Kdsb
pdb|2Y6P|B Chain B, Evidence For A Two-Metal-Ion-Mechanism In The
Kdo-Cytidylyltransferase Kdsb
pdb|2Y6P|C Chain C, Evidence For A Two-Metal-Ion-Mechanism In The
Kdo-Cytidylyltransferase Kdsb
Length = 234
Score = 127 bits (320), Expect = 6e-30, Method: Compositional matrix adjust.
Identities = 79/218 (36%), Positives = 123/218 (56%), Gaps = 13/218 (5%)
Query: 53 IIPARFASSRFEGKPLVNILGKPMIQRTWERSKLATTLDHLVVATDDEKIAECCQQFGAD 112
IIPAR S+R + KPL N+LGKP+I+ W L T + +++ATD E++ E + +
Sbjct: 6 IIPARLGSTRLKEKPLKNLLGKPLIR--WVVEGLVKTGERVILATDSERVKEVVEDL-CE 62
Query: 113 VIMTSESCRNGTERCNEALQKLEKKYDIVVNIQGDEPLIEPEIIDGVVKALQAAPDAVFS 172
V +T +G++R ++ L+ D+++N QGDEP + E I + + L+ V
Sbjct: 63 VFLTPSDLPSGSDRVLYVVRDLD--VDLIINYQGDEPFVYEEDIKLIFRELEKGERVV-- 118
Query: 173 TAVTSLKPEDAFD-PNRVKCVVDNHGYAIYFSRGLIPYNKSGKVNPQFPYLLHLGIQSYD 231
+ K ++A++ P VK V+D GYA+YFSR IPY + N F L H+GI +
Sbjct: 119 --TLARKDKEAYERPEDVKVVLDREGYALYFSRSPIPYFRK---NDTFYPLKHVGIYGFR 173
Query: 232 SNFLKIYPGLHPTPLQLEEDLEQLKVLENGYKMKVQQT 269
L + + P+ L+ E LEQL++LENG K+KV T
Sbjct: 174 KETLMEFGAMPPSKLEQIEGLEQLRLLENGIKIKVLIT 211
>pdb|1QWJ|A Chain A, The Crystal Structure Of Murine Cmp-5-N-Acetylneuraminic
Acid Synthetase
pdb|1QWJ|B Chain B, The Crystal Structure Of Murine Cmp-5-N-Acetylneuraminic
Acid Synthetase
pdb|1QWJ|C Chain C, The Crystal Structure Of Murine Cmp-5-N-Acetylneuraminic
Acid Synthetase
pdb|1QWJ|D Chain D, The Crystal Structure Of Murine Cmp-5-N-Acetylneuraminic
Acid Synthetase
Length = 229
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 37/131 (28%), Positives = 63/131 (48%), Gaps = 10/131 (7%)
Query: 50 VVGIIPARFASSRFEGKPLVNI---LGKPMIQRTWERSKLATTLDHLVVATDDEKIAECC 106
+ ++ AR S +G PL NI G P+I + A + V+TD ++I
Sbjct: 4 LAALVLARGGS---KGIPLKNIKRLAGVPLIGWVLRAALDAGVFQSVWVSTDHDEIENVA 60
Query: 107 QQFGADVI-MTSESCRNGTERCNEALQKL--EKKYDIVVNIQGDEPLIEPEIIDGVVKAL 163
+QFGA V +SE+ ++ + + ++ L + DIV NIQ P + P + V + +
Sbjct: 61 KQFGAQVHRRSSETSKDSSTSLDAIVEFLNYHNEVDIVGNIQATSPCLHPTDLQKVAEMI 120
Query: 164 -QAAPDAVFST 173
+ D+VFS
Sbjct: 121 REEGYDSVFSV 131
>pdb|2XWL|A Chain A, Crystal Structure Of Ispd From Mycobacterium Smegmatis In
Complex With Ctp And Mg
pdb|2XWL|B Chain B, Crystal Structure Of Ispd From Mycobacterium Smegmatis In
Complex With Ctp And Mg
pdb|2XWM|A Chain A, Crystal Structure Of Ispd From Mycobacterium Smegmatis In
Complex With Cmp
pdb|2XWM|B Chain B, Crystal Structure Of Ispd From Mycobacterium Smegmatis In
Complex With Cmp
Length = 223
Score = 33.9 bits (76), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 39/146 (26%), Positives = 58/146 (39%), Gaps = 17/146 (11%)
Query: 51 VGIIPARFASSRFE-GKP--LVNILGKPMIQRTWERSKLATTLDHLVVATDDEKIAECCQ 107
V ++PA + R G+P V + G P+++ + + +D +V+A E
Sbjct: 4 VAVVPAAGSGERLRAGRPKAFVTLGGTPLLEHALSGLRASGVIDRIVIAVPPALTDESKL 63
Query: 108 QFGA-DVIMTSESCRNGTERCNEALQKLEKKYD--IVVNIQGDEPLIEPEIIDGVVKALQ 164
FG D ++ S G +R LE D V+ L P +I VV AL+
Sbjct: 64 VFGGEDSVIVS----GGVDRTESVALALEAAGDAEFVLVHDAARALTPPALIARVVAALK 119
Query: 165 AAPDAVFSTAVTSLKPED---AFDPN 187
AV V L P D A D N
Sbjct: 120 EGHSAV----VPGLAPADTIKAVDAN 141
>pdb|1EYR|A Chain A, Structure Of A Sialic Acid Activating Synthetase, Cmp
Acylneuraminate Synthetase In The Presence And Absence
Of Cdp
pdb|1EYR|B Chain B, Structure Of A Sialic Acid Activating Synthetase, Cmp
Acylneuraminate Synthetase In The Presence And Absence
Of Cdp
pdb|1EZI|A Chain A, Structure Of A Sialic Acid Activating Synthetase, Cmp
Acylneuraminate Synthetase In The Presence And Absence
Of Cdp
pdb|1EZI|B Chain B, Structure Of A Sialic Acid Activating Synthetase, Cmp
Acylneuraminate Synthetase In The Presence And Absence
Of Cdp
Length = 228
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 31/65 (47%)
Query: 51 VGIIPARFASSRFEGKPLVNILGKPMIQRTWERSKLATTLDHLVVATDDEKIAECCQQFG 110
+ +I AR S K L G ++ T + + D ++V+TD IAE + FG
Sbjct: 6 IAVILARQNSKGLPLKNLRKXNGISLLGHTINAAISSKCFDRIIVSTDGGLIAEEAKNFG 65
Query: 111 ADVIM 115
+V++
Sbjct: 66 VEVVL 70
>pdb|2WAW|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Rv0371c
Homolog From Mycobacterium Sp. Strain Jc1
Length = 199
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 30/131 (22%), Positives = 56/131 (42%), Gaps = 10/131 (7%)
Query: 46 FRSRVVGIIPARFASSRFEGKPLVNILGKPMIQRTWERSKLATT----LDHLVVATDD-- 99
RSRV G++ A S R G P + P+ T + LA D L+V
Sbjct: 2 LRSRVTGVVLAAGYSRRL-GTPKQLL---PLGDTTLLGATLAMARRCPFDQLIVTLGGAA 57
Query: 100 EKIAECCQQFGADVIMTSESCRNGTERCNEALQKLEKKYDIVVNIQGDEPLIEPEIIDGV 159
+++ E + G D+++ ++ + AL ++ + +V + GD+P I + +
Sbjct: 58 DEVLEKVELDGLDIVLVDDAGLGXSSSLKSALTWVDPTAEGIVLMLGDQPGITASAVASL 117
Query: 160 VKALQAAPDAV 170
+ + A AV
Sbjct: 118 IAGGRGATIAV 128
>pdb|1XJV|A Chain A, Crystal Structure Of Human Pot1 Bound To Telomeric Single-
Stranded Dna (Ttagggttag)
Length = 294
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 25/50 (50%), Gaps = 5/50 (10%)
Query: 46 FRSRVVGIIPARFASSRFEGKPLVNILGKPMIQRTWERSKLATTLDHLVV 95
++ GI + FAS FEG LG P+I RT + TT DH +V
Sbjct: 84 YKKETQGITSSGFASLTFEGT-----LGAPIIPRTSSKYFNFTTEDHKMV 128
>pdb|3KJO|A Chain A, Crystal Structure Of Hpot1v2-Dtrud(Agggttag)
pdb|3KJP|A Chain A, Crystal Structure Of Hpot1v2-Ggttagggttag
Length = 299
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 25/50 (50%), Gaps = 5/50 (10%)
Query: 46 FRSRVVGIIPARFASSRFEGKPLVNILGKPMIQRTWERSKLATTLDHLVV 95
++ GI + FAS FEG LG P+I RT + TT DH +V
Sbjct: 89 YKKETQGITSSGFASLTFEGT-----LGAPIIPRTSSKYFNFTTEDHKMV 133
>pdb|1FKK|A Chain A, Atomic Structure Of Fkbp12, An Immunophilin Binding
Protein
pdb|1FKL|A Chain A, Atomic Structure Of Fkbp12-Rapaymycin, An Immunophilin-
Immunosuppressant Complex
Length = 107
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 10/51 (19%)
Query: 57 RFASSRFEGKPLVNILGKPMIQRTWE----------RSKLATTLDHLVVAT 97
+F SSR KP +LGK + R WE R+KL + D+ AT
Sbjct: 35 KFDSSRDRNKPFKFVLGKQEVIRGWEEGVAQMSVGQRAKLTISPDYAYGAT 85
>pdb|1ZVU|A Chain A, Structure Of The Full-Length E. Coli Parc Subunit
Length = 716
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 26/54 (48%), Gaps = 10/54 (18%)
Query: 49 RVVGIIPARFASSRFEGKPLVNILGKPMIQRTWERSKLATTLDHLVVATDDEKI 102
R I P S+R +G+PL L P T+DH+++ +DD+K+
Sbjct: 525 RSYAIDPITLPSARGQGEPLTGKLTLPP----------GATVDHMLMESDDQKL 568
>pdb|1BKF|A Chain A, Fk506 Binding Protein Fkbp Mutant R42kH87V COMPLEX WITH
Immunosuppressant Fk506
Length = 107
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 10/51 (19%)
Query: 57 RFASSRFEGKPLVNILGKPMIQRTWE----------RSKLATTLDHLVVAT 97
+F SSR + KP +LGK + R WE R+KL + D+ AT
Sbjct: 35 KFDSSRDKNKPFKFMLGKQEVIRGWEEGVAQMSVGQRAKLTISPDYAYGAT 85
>pdb|1ZVT|A Chain A, Structure Of The E. Coli Parc C-terminal Domain
pdb|1ZVT|B Chain B, Structure Of The E. Coli Parc C-terminal Domain
Length = 256
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 26/54 (48%), Gaps = 10/54 (18%)
Query: 49 RVVGIIPARFASSRFEGKPLVNILGKPMIQRTWERSKLATTLDHLVVATDDEKI 102
R I P S+R +G+PL L P T+DH+++ +DD+K+
Sbjct: 55 RSYAIDPITLPSARGQGEPLTGKLTLPP----------GATVDHMLMESDDQKL 98
>pdb|1AX3|A Chain A, Solution Nmr Structure Of B. Subtilis Iiaglc, 16
Structures
pdb|1GPR|A Chain A, Refined Crystal Structure Of Iia Domain Of The Glucose
Permease Of Bacillus Subtilis At 1.9 Angstroms
Resolution
Length = 162
Score = 28.1 bits (61), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 41/104 (39%), Gaps = 20/104 (19%)
Query: 146 GDEPLIEPEIIDGVVKALQAAPDAVFSTAVTSLKPEDAFDPNRVKCVVDNHGYAIYFSRG 205
G+E + P I G + + PD VFS + G+AI S G
Sbjct: 11 GEEVFVSP--ITGEIHPITDVPDQVFSGKMM------------------GDGFAILPSEG 50
Query: 206 LIPYNKSGKVNPQFPYLLHLGIQSYDSNFLKIYPGLHPTPLQLE 249
++ GK+ FP +G+QS + I+ G+ L+ E
Sbjct: 51 IVVSPVRGKILNVFPTKHAIGLQSDGGREILIHFGIDTVSLKGE 94
>pdb|3TUF|A Chain A, Structure Of The Spoiiq-Spoiiiah Pore Forming Complex
Length = 197
Score = 27.7 bits (60), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 35/69 (50%), Gaps = 8/69 (11%)
Query: 79 RTWERSKLATTLDHLVVATDDEKIAECCQQFGADVIMTSESCRNGTERCNEALQKLEKKY 138
R+ ER +L + +V++DD E + + MT+ S GTE+ E L K +
Sbjct: 96 RSKEREEL-----NAIVSSDDATAKEKSEAYDK---MTALSEVEGTEKQLETLIKTQGYE 147
Query: 139 DIVVNIQGD 147
D +VN +GD
Sbjct: 148 DALVNAEGD 156
>pdb|2FLI|A Chain A, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|B Chain B, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|C Chain C, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|D Chain D, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|E Chain E, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|F Chain F, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|G Chain G, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|H Chain H, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|I Chain I, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|J Chain J, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|K Chain K, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|L Chain L, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
Length = 220
Score = 27.3 bits (59), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 29/105 (27%), Positives = 53/105 (50%), Gaps = 13/105 (12%)
Query: 63 FEGKPLVNI-LGKPMIQRTWERSKLATTLDHLVVATDDEKIAECCQQFGADVI-MTSESC 120
+G+ + NI G ++ + SKL D ++ D E+ E Q GAD++ + +ES
Sbjct: 38 MDGQFVPNISFGADVVASMRKHSKL--VFDCHLMVVDPERYVEAFAQAGADIMTIHTEST 95
Query: 121 RNGTERCNEALQKLEK---KYDIVVNIQGDEPLIEP--EIIDGVV 160
R+ + ALQK++ K +V+N +EP +++D V+
Sbjct: 96 RH----IHGALQKIKAAGMKAGVVINPGTPATALEPLLDLVDQVL 136
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.138 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,447,385
Number of Sequences: 62578
Number of extensions: 307838
Number of successful extensions: 990
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 938
Number of HSP's gapped (non-prelim): 28
length of query: 277
length of database: 14,973,337
effective HSP length: 98
effective length of query: 179
effective length of database: 8,840,693
effective search space: 1582484047
effective search space used: 1582484047
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)