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= psy15783
(86 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1T2A|A Chain A, Crystal Structure Of Human Gdp-D-Mannose 4,6-Dehydratase
pdb|1T2A|B Chain B, Crystal Structure Of Human Gdp-D-Mannose 4,6-Dehydratase
pdb|1T2A|C Chain C, Crystal Structure Of Human Gdp-D-Mannose 4,6-Dehydratase
pdb|1T2A|D Chain D, Crystal Structure Of Human Gdp-D-Mannose 4,6-Dehydratase
Length = 375
Score = 110 bits (274), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 50/72 (69%), Positives = 60/72 (83%)
Query: 12 AMWMMLQQDTPQDFVIATGETHSVREFVEAAFLYIGKTIVWEGTGKDEVGKEKDTGIVRV 71
AMW+MLQ D P+DFVIATGE HSVREFVE +FL+IGKTIVWEG ++EVG+ K+TG V V
Sbjct: 259 AMWLMLQNDEPEDFVIATGEVHSVREFVEKSFLHIGKTIVWEGKNENEVGRCKETGKVHV 318
Query: 72 KVNENYFRPTEV 83
V+ Y+RPTEV
Sbjct: 319 TVDLKYYRPTEV 330
>pdb|2Z1M|A Chain A, Crystal Structure Of Gdp-D-Mannose Dehydratase From
Aquifex Aeolicus Vf5
pdb|2Z1M|B Chain B, Crystal Structure Of Gdp-D-Mannose Dehydratase From
Aquifex Aeolicus Vf5
pdb|2Z1M|C Chain C, Crystal Structure Of Gdp-D-Mannose Dehydratase From
Aquifex Aeolicus Vf5
pdb|2Z1M|D Chain D, Crystal Structure Of Gdp-D-Mannose Dehydratase From
Aquifex Aeolicus Vf5
pdb|2Z95|A Chain A, Crystal Structure Of Gdp-D-Mannose Dehydratase From
Aquifex Aeolicus Vf5
pdb|2Z95|B Chain B, Crystal Structure Of Gdp-D-Mannose Dehydratase From
Aquifex Aeolicus Vf5
pdb|2Z95|C Chain C, Crystal Structure Of Gdp-D-Mannose Dehydratase From
Aquifex Aeolicus Vf5
pdb|2Z95|D Chain D, Crystal Structure Of Gdp-D-Mannose Dehydratase From
Aquifex Aeolicus Vf5
Length = 345
Score = 84.3 bits (207), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 41/72 (56%), Positives = 52/72 (72%)
Query: 12 AMWMMLQQDTPQDFVIATGETHSVREFVEAAFLYIGKTIVWEGTGKDEVGKEKDTGIVRV 71
AMW+M+QQ P D+VIATGETH+VREFVE A G I W G G +E G +++TG V V
Sbjct: 230 AMWLMMQQPEPDDYVIATGETHTVREFVEKAAKIAGFDIEWVGEGINEKGIDRNTGKVIV 289
Query: 72 KVNENYFRPTEV 83
+V+E +FRP EV
Sbjct: 290 EVSEEFFRPAEV 301
>pdb|1DB3|A Chain A, E.Coli Gdp-Mannose 4,6-Dehydratase
Length = 372
Score = 67.0 bits (162), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 37/80 (46%), Positives = 47/80 (58%), Gaps = 10/80 (12%)
Query: 14 WMMLQQDTPQDFVIATGETHSVREFVEAAFLYIGKTIVWEGTGKDEVG----------KE 63
WMMLQQ+ P+DFVIATG +SVR+FVE A +G + +EGTG +E G
Sbjct: 237 WMMLQQEQPEDFVIATGVQYSVRQFVEMAAAQLGIKLRFEGTGVEEKGIVVSVTGHDAPG 296
Query: 64 KDTGIVRVKVNENYFRPTEV 83
G V + V+ YFRP EV
Sbjct: 297 VKPGDVIIAVDPRYFRPAEV 316
>pdb|1N7G|A Chain A, Crystal Structure Of The Gdp-mannose 4,6-dehydratase
Ternary Complex With Nadph And Gdp-rhamnose.
pdb|1N7G|B Chain B, Crystal Structure Of The Gdp-mannose 4,6-dehydratase
Ternary Complex With Nadph And Gdp-rhamnose.
pdb|1N7G|C Chain C, Crystal Structure Of The Gdp-mannose 4,6-dehydratase
Ternary Complex With Nadph And Gdp-rhamnose.
pdb|1N7G|D Chain D, Crystal Structure Of The Gdp-mannose 4,6-dehydratase
Ternary Complex With Nadph And Gdp-rhamnose.
pdb|1N7H|A Chain A, Crystal Structure Of Gdp-Mannose 4,6-Dehydratase Ternary
Complex With Nadph And Gdp
pdb|1N7H|B Chain B, Crystal Structure Of Gdp-Mannose 4,6-Dehydratase Ternary
Complex With Nadph And Gdp
Length = 381
Score = 58.9 bits (141), Expect = 8e-10, Method: Composition-based stats.
Identities = 30/72 (41%), Positives = 44/72 (61%), Gaps = 17/72 (23%)
Query: 12 AMWMMLQQDTPQDFVIATGETHSVREFVEAAFLYIGKTIVWEGTGKDEVGKEKDTGIVRV 71
AMW+MLQQ+ P D+V+AT E H+V EF++ +F Y+G + W KD V
Sbjct: 264 AMWLMLQQEKPDDYVVATEEGHTVEEFLDVSFGYLG--LNW-----------KDY----V 306
Query: 72 KVNENYFRPTEV 83
++++ YFRP EV
Sbjct: 307 EIDQRYFRPAEV 318
>pdb|1RPN|A Chain A, Crystal Structure Of Gdp-D-Mannose 4,6-Dehydratase In
Complexes With Gdp And Nadph
pdb|1RPN|B Chain B, Crystal Structure Of Gdp-D-Mannose 4,6-Dehydratase In
Complexes With Gdp And Nadph
pdb|1RPN|C Chain C, Crystal Structure Of Gdp-D-Mannose 4,6-Dehydratase In
Complexes With Gdp And Nadph
pdb|1RPN|D Chain D, Crystal Structure Of Gdp-D-Mannose 4,6-Dehydratase In
Complexes With Gdp And Nadph
Length = 335
Score = 33.9 bits (76), Expect = 0.026, Method: Composition-based stats.
Identities = 26/72 (36%), Positives = 39/72 (54%), Gaps = 17/72 (23%)
Query: 12 AMWMMLQQDTPQDFVIATGETHSVREFVEAAFLYIGKTIVWEGTGKDEVGKEKDTGIVRV 71
AMW+MLQQD D+V+ATG T +VR+ + AF ++G +D +
Sbjct: 241 AMWLMLQQDKADDYVVATGVTTTVRDMCQIAFEHVGLDY-------------RDF----L 283
Query: 72 KVNENYFRPTEV 83
K++ +FRP EV
Sbjct: 284 KIDPAFFRPAEV 295
>pdb|2PZK|A Chain A, Crystal Structure Of The Bordetella Bronchiseptica Enzyme
Wbmg In Complex With Nad
pdb|2PZK|B Chain B, Crystal Structure Of The Bordetella Bronchiseptica Enzyme
Wbmg In Complex With Nad
pdb|2PZL|A Chain A, Crystal Structure Of The Bordetella Bronchiseptica Enzyme
Wbmg In Complex With Nad And Udp
pdb|2PZL|B Chain B, Crystal Structure Of The Bordetella Bronchiseptica Enzyme
Wbmg In Complex With Nad And Udp
pdb|2PZM|A Chain A, Crystal Structure Of The Bordetella Bronchiseptica Enzyme
Wbmg In Complex With Nad And Udp
pdb|2PZM|B Chain B, Crystal Structure Of The Bordetella Bronchiseptica Enzyme
Wbmg In Complex With Nad And Udp
Length = 330
Score = 30.0 bits (66), Expect = 0.31, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 15 MMLQQDTPQD-FVIATGETHSVREFVEAAFLYIGKTI 50
+ LQ+ P F ++TGE HS++E + Y+G T+
Sbjct: 230 LSLQEGRPTGVFNVSTGEGHSIKEVFDVVLDYVGATL 266
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
0.318 0.135 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,728,070
Number of Sequences: 62578
Number of extensions: 101643
Number of successful extensions: 220
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 210
Number of HSP's gapped (non-prelim): 9
length of query: 86
length of database: 14,973,337
effective HSP length: 54
effective length of query: 32
effective length of database: 11,594,125
effective search space: 371012000
effective search space used: 371012000
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)