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= 012807
(456 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XE5|A Chain A, Molecular Insights Into Clinically Isolated Ompc Mutants
And Their Role In Multi-Drug Resistance (Ompc26)
pdb|2XE5|B Chain B, Molecular Insights Into Clinically Isolated Ompc Mutants
And Their Role In Multi-Drug Resistance (Ompc26)
pdb|2XE5|C Chain C, Molecular Insights Into Clinically Isolated Ompc Mutants
And Their Role In Multi-Drug Resistance (Ompc26)
pdb|2XE5|D Chain D, Molecular Insights Into Clinically Isolated Ompc Mutants
And Their Role In Multi-Drug Resistance (Ompc26)
pdb|2XE5|E Chain E, Molecular Insights Into Clinically Isolated Ompc Mutants
And Their Role In Multi-Drug Resistance (Ompc26)
pdb|2XE5|F Chain F, Molecular Insights Into Clinically Isolated Ompc Mutants
And Their Role In Multi-Drug Resistance (Ompc26)
Length = 343
Score = 36.6 bits (83), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 37/161 (22%), Positives = 65/161 (40%), Gaps = 26/161 (16%)
Query: 81 VIDQQGKKITDGKTIDYIEKALGPKGHITAGAKTWPSKQVGVHSVGDHTAIELIGRDRPG 140
V +Q G + G +I Y + G +++ +TW G+ GD G
Sbjct: 169 VFEQNGDGV--GGSITYNYEGFGIGAAVSSSKRTWDQNNTGLIGTGDRAETYT-----GG 221
Query: 141 LLSEISAVLANLRFNVAAAEVWTHN-RRIACVLYVNDDTTCRAV-------GDQTRLSLM 192
L + + + +AA T+N R+ + + N AV G + L+ +
Sbjct: 222 LKYDANNIY------LAAQYTQTYNATRVGSLGWANKAQNFEAVAQYQFDFGLRPSLAYL 275
Query: 193 EEQLKNILRGCDDEDSEKVARTSFSMGF-----THVDRRLH 228
+ + KN+ RG DDED K + F T+VD +++
Sbjct: 276 QSKGKNLGRGYDDEDILKYVDVGATYYFNKNMSTYVDYKIN 316
>pdb|2XE2|A Chain A, Molecular Insights Into Clinically Isolated Ompc20 Mutants
And Their Role In Multi-Drug Resistance
pdb|2XE2|B Chain B, Molecular Insights Into Clinically Isolated Ompc20 Mutants
And Their Role In Multi-Drug Resistance
pdb|2XE2|C Chain C, Molecular Insights Into Clinically Isolated Ompc20 Mutants
And Their Role In Multi-Drug Resistance
Length = 343
Score = 36.6 bits (83), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 37/161 (22%), Positives = 65/161 (40%), Gaps = 26/161 (16%)
Query: 81 VIDQQGKKITDGKTIDYIEKALGPKGHITAGAKTWPSKQVGVHSVGDHTAIELIGRDRPG 140
V +Q G + G +I Y + G +++ +TW G+ GD G
Sbjct: 169 VFEQNGDGV--GGSITYNYEGFGIGAAVSSSKRTWDQNNTGLIGTGDRAETYT-----GG 221
Query: 141 LLSEISAVLANLRFNVAAAEVWTHN-RRIACVLYVNDDTTCRAV-------GDQTRLSLM 192
L + + + +AA T+N R+ + + N AV G + L+ +
Sbjct: 222 LKYDANNIY------LAAQYTQTYNATRVGSLGWANKAQNFEAVAQYQFDFGLRPSLAYL 275
Query: 193 EEQLKNILRGCDDEDSEKVARTSFSMGF-----THVDRRLH 228
+ + KN+ RG DDED K + F T+VD +++
Sbjct: 276 QSKGKNLGRGYDDEDILKYVDVGATYYFNKNMSTYVDYKIN 316
>pdb|2XE3|A Chain A, Ompc28
pdb|2XE3|B Chain B, Ompc28
Length = 343
Score = 35.8 bits (81), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 37/161 (22%), Positives = 65/161 (40%), Gaps = 26/161 (16%)
Query: 81 VIDQQGKKITDGKTIDYIEKALGPKGHITAGAKTWPSKQVGVHSVGDHTAIELIGRDRPG 140
V +Q G + G +I Y + G +++ +TW G+ GD G
Sbjct: 169 VFEQNGDGV--GGSITYNYEGFGIGAAVSSSKRTWDQNNTGLIGTGDRAETYT-----GG 221
Query: 141 LLSEISAVLANLRFNVAAAEVWTHN-RRIACVLYVNDDTTCRAV-------GDQTRLSLM 192
L + + + +AA T+N R+ + + N AV G + L+ +
Sbjct: 222 LKYDANNIY------LAAQYTQTYNATRVGSLGWANKAQNFEAVAQYQFDFGLRPFLAYL 275
Query: 193 EEQLKNILRGCDDEDSEKVARTSFSMGF-----THVDRRLH 228
+ + KN+ RG DDED K + F T+VD +++
Sbjct: 276 QSKGKNLGRGYDDEDILKYVDVGATYYFNKNMSTYVDYKIN 316
>pdb|2XG6|A Chain A, Molecular Insights Into Clinically Isolated Ompc Mutants
And Their Role In Multi-Drug Resistance
pdb|2XG6|B Chain B, Molecular Insights Into Clinically Isolated Ompc Mutants
And Their Role In Multi-Drug Resistance
pdb|2XG6|C Chain C, Molecular Insights Into Clinically Isolated Ompc Mutants
And Their Role In Multi-Drug Resistance
pdb|2XG6|D Chain D, Molecular Insights Into Clinically Isolated Ompc Mutants
And Their Role In Multi-Drug Resistance
pdb|2XG6|E Chain E, Molecular Insights Into Clinically Isolated Ompc Mutants
And Their Role In Multi-Drug Resistance
pdb|2XG6|F Chain F, Molecular Insights Into Clinically Isolated Ompc Mutants
And Their Role In Multi-Drug Resistance
Length = 343
Score = 35.8 bits (81), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 37/161 (22%), Positives = 65/161 (40%), Gaps = 26/161 (16%)
Query: 81 VIDQQGKKITDGKTIDYIEKALGPKGHITAGAKTWPSKQVGVHSVGDHTAIELIGRDRPG 140
V +Q G + G +I Y + G +++ +TW G+ GD G
Sbjct: 169 VFEQNGDGV--GGSITYNYEGFGIGAAVSSSKRTWDQNNTGLIGTGDRAETYT-----GG 221
Query: 141 LLSEISAVLANLRFNVAAAEVWTHN-RRIACVLYVNDDTTCRAV-------GDQTRLSLM 192
L + + + +AA T+N R+ + + N AV G + L+ +
Sbjct: 222 LKYDANNIY------LAAQYTQTYNATRVGSLGWANKAQNFEAVAQYQFDFGLRPFLAYL 275
Query: 193 EEQLKNILRGCDDEDSEKVARTSFSMGF-----THVDRRLH 228
+ + KN+ RG DDED K + F T+VD +++
Sbjct: 276 QSKGKNLGRGYDDEDILKYVDVGATYYFNKNMSTYVDYKIN 316
>pdb|1FW6|A Chain A, Crystal Structure Of A Taq Muts-Dna-Adp Ternary Complex
pdb|1FW6|B Chain B, Crystal Structure Of A Taq Muts-Dna-Adp Ternary Complex
Length = 768
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 39/79 (49%), Gaps = 7/79 (8%)
Query: 327 EKERVIKCLEAAIRRRVSE-GLSLELCAKDRVGLLSEVTRILRENGLSVTRAGVSTVGEQ 385
EKER + LEA IRRR E L + AK + L E RIL E L V + + E
Sbjct: 483 EKEREVYRLEALIRRREEEVFLEVRERAKRQAEALREAARILAE--LDV----YAALAEV 536
Query: 386 AVNVFYVRDASGNPVDMKT 404
AV YVR G+ + ++
Sbjct: 537 AVRYGYVRPRFGDRLQIRA 555
>pdb|1EWQ|A Chain A, Crystal Structure Taq Muts Complexed With A Heteroduplex
Dna At 2.2 A Resolution
pdb|1EWQ|B Chain B, Crystal Structure Taq Muts Complexed With A Heteroduplex
Dna At 2.2 A Resolution
Length = 765
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 39/79 (49%), Gaps = 7/79 (8%)
Query: 327 EKERVIKCLEAAIRRRVSE-GLSLELCAKDRVGLLSEVTRILRENGLSVTRAGVSTVGEQ 385
EKER + LEA IRRR E L + AK + L E RIL E L V + + E
Sbjct: 483 EKEREVYRLEALIRRREEEVFLEVRERAKRQAEALREAARILAE--LDV----YAALAEV 536
Query: 386 AVNVFYVRDASGNPVDMKT 404
AV YVR G+ + ++
Sbjct: 537 AVRYGYVRPRFGDRLQIRA 555
>pdb|1NNE|A Chain A, Crystal Structure Of The Muts-adpbef3-dna Complex
pdb|1NNE|B Chain B, Crystal Structure Of The Muts-adpbef3-dna Complex
Length = 765
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 39/79 (49%), Gaps = 7/79 (8%)
Query: 327 EKERVIKCLEAAIRRRVSE-GLSLELCAKDRVGLLSEVTRILRENGLSVTRAGVSTVGEQ 385
EKER + LEA IRRR E L + AK + L E RIL E L V + + E
Sbjct: 483 EKEREVYRLEALIRRREEEVFLEVRERAKRQAEALREAARILAE--LDV----YAALAEV 536
Query: 386 AVNVFYVRDASGNPVDMKT 404
AV YVR G+ + ++
Sbjct: 537 AVRYGYVRPRFGDRLQIRA 555
>pdb|1EWR|A Chain A, Crystal Structure Of Taq Muts
pdb|1EWR|B Chain B, Crystal Structure Of Taq Muts
Length = 649
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 39/79 (49%), Gaps = 7/79 (8%)
Query: 327 EKERVIKCLEAAIRRRVSE-GLSLELCAKDRVGLLSEVTRILRENGLSVTRAGVSTVGEQ 385
EKER + LEA IRRR E L + AK + L E RIL E L V + + E
Sbjct: 367 EKEREVYRLEALIRRREEEVFLEVRERAKRQAEALREAARILAE--LDV----YAALAEV 420
Query: 386 AVNVFYVRDASGNPVDMKT 404
AV YVR G+ + ++
Sbjct: 421 AVRYGYVRPRFGDRLQIRA 439
>pdb|3NUT|A Chain A, Crystal Structure Of The Methyltransferase Cobj
pdb|3NUT|B Chain B, Crystal Structure Of The Methyltransferase Cobj
pdb|3NUT|C Chain C, Crystal Structure Of The Methyltransferase Cobj
pdb|3NUT|D Chain D, Crystal Structure Of The Methyltransferase Cobj
Length = 251
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 353 AKDRVGLLSEVTRILREN---GLSVTRAGVSTVGEQAVNVFYVRDASGNPVDMKTI 405
+K R + V ILRE G + A T EQA++V +RDA+ DM+T+
Sbjct: 173 SKSRPHQFTRVLEILREECEPGRLILFARAVTTPEQAISVVELRDATPEMADMRTV 228
>pdb|1P9B|A Chain A, Structure Of Fully Ligated Adenylosuccinate Synthetase
From Plasmodium Falciparum
Length = 442
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 38/69 (55%), Gaps = 6/69 (8%)
Query: 42 SVNKPGILLEVVQVLSDLDLI----ITKAYISSDGGWFMDVFHVID--QQGKKITDGKTI 95
SV G+++ V ++ +++ + + + Y+S+ D+ +ID Q+ KK+ +GK I
Sbjct: 79 SVLGNGMVIHVKSLMEEIESVGGKLLDRLYLSNKAHILFDIHQIIDSIQETKKLKEGKQI 138
Query: 96 DYIEKALGP 104
++ +GP
Sbjct: 139 GTTKRGIGP 147
>pdb|3EY7|A Chain A, Structure From The Mobile Metagenome Of V. Cholerae.
Integron Cassette Protein Vch_cass1
pdb|3EY7|B Chain B, Structure From The Mobile Metagenome Of V. Cholerae.
Integron Cassette Protein Vch_cass1
Length = 133
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 359 LLSEVTRILRENGLSVTRAGVSTVGEQ-AVNVFYVRDASGNPVDMKT 404
+LS+ + + + G+++ V G Q A+ FY RD GN +++ T
Sbjct: 83 VLSDAXKHVEDQGVTIXEGPVKRTGAQGAITSFYFRDPDGNLIEVST 129
>pdb|1HDC|A Chain A, Mechanism Of Inhibition Of 3alpha,20beta-Hydroxysteroid
Dehydrogenase By A Licorice-Derived Steroidal Inhibitor
pdb|1HDC|B Chain B, Mechanism Of Inhibition Of 3alpha,20beta-Hydroxysteroid
Dehydrogenase By A Licorice-Derived Steroidal Inhibitor
pdb|1HDC|C Chain C, Mechanism Of Inhibition Of 3alpha,20beta-Hydroxysteroid
Dehydrogenase By A Licorice-Derived Steroidal Inhibitor
pdb|1HDC|D Chain D, Mechanism Of Inhibition Of 3alpha,20beta-Hydroxysteroid
Dehydrogenase By A Licorice-Derived Steroidal Inhibitor
Length = 254
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 44 NKPG-ILLEVVQVLSDLDLIITKAYISSDGGW 74
N+PG I VV++LSD +T A ++ DGGW
Sbjct: 211 NEPGEIAGAVVKLLSDTSSYVTGAELAVDGGW 242
>pdb|3I99|A Chain A, The Crystal Structure Of The
Udp-N-Acetylenolpyruvoylglucosamine Reductase From The
Vibrio Cholerae O1 Biovar Tor
Length = 357
Score = 29.3 bits (64), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 4/58 (6%)
Query: 77 DVFHVIDQQGKKITDGKTIDYIEKALGPKGHITAGAKTWPSKQVGVHSVGDHTAIELI 134
DV +QG K+ G ID G KGH GAK P + + + + GD +A +++
Sbjct: 263 DVVAYPAEQGVKVAAGWLID----QAGLKGHQIGGAKVHPKQALVIVNTGDASAQDVL 316
>pdb|2HSD|A Chain A, The Refined Three-Dimensional Structure Of 3alpha,20beta-
Hydroxysteroid Dehydrogenase And Possible Roles Of The
Residues Conserved In Short-Chain Dehydrogenases
pdb|2HSD|B Chain B, The Refined Three-Dimensional Structure Of 3alpha,20beta-
Hydroxysteroid Dehydrogenase And Possible Roles Of The
Residues Conserved In Short-Chain Dehydrogenases
pdb|2HSD|C Chain C, The Refined Three-Dimensional Structure Of 3alpha,20beta-
Hydroxysteroid Dehydrogenase And Possible Roles Of The
Residues Conserved In Short-Chain Dehydrogenases
pdb|2HSD|D Chain D, The Refined Three-Dimensional Structure Of 3alpha,20beta-
Hydroxysteroid Dehydrogenase And Possible Roles Of The
Residues Conserved In Short-Chain Dehydrogenases
Length = 253
Score = 28.9 bits (63), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 43 VNKPG-ILLEVVQVLSDLDLIITKAYISSDGGW 74
V +PG I VV++LSD +T A ++ DGGW
Sbjct: 209 VGEPGEIAGAVVKLLSDTSSYVTGAELAVDGGW 241
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 0.135 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,282,945
Number of Sequences: 62578
Number of extensions: 537877
Number of successful extensions: 1437
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 1432
Number of HSP's gapped (non-prelim): 19
length of query: 456
length of database: 14,973,337
effective HSP length: 102
effective length of query: 354
effective length of database: 8,590,381
effective search space: 3040994874
effective search space used: 3040994874
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: 53 (25.0 bits)