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= 024767
(263 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2EXN|A Chain A, Solution Structure For The Protein Coded By Gene Locus
Bb0938 Of Bordetella Bronchiseptica. Northeast
Structural Genomics Target Bor11
Length = 136
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 37/130 (28%), Positives = 61/130 (46%), Gaps = 23/130 (17%)
Query: 14 PIKSCRGISVSQAPLTPTGFRWDRQWMVINNKGRAYTQRNEPKLALVQIELPNEAFLEGW 73
PI C + S+A + ++W+V N+ G+ + P+LA V +EL
Sbjct: 8 PIAECGATTQSEAAA------YQKRWLVANDAGQWLNRDLCPRLAEVSVEL--------- 52
Query: 74 EPTGSSYMVIRAPGMQALKIPMSKPCDIADGVS----VWEWSGSALDEGAEASNWFTNYL 129
Y+V++APGM L IP+ D D V V E + +DEG A+ W +N+
Sbjct: 53 ---RMGYLVLKAPGMLRLDIPLDVIED-DDSVRYQMLVGEQTVDVVDEGELAAAWISNHA 108
Query: 130 GKSSRLVRYN 139
G R+++ +
Sbjct: 109 GVPCRILKVH 118
>pdb|1CQI|B Chain B, Crystal Structure Of The Complex Of Adp And Mg2+ With
Dephosphorylated E. Coli Succinyl-Coa Synthetase
pdb|1CQI|E Chain E, Crystal Structure Of The Complex Of Adp And Mg2+ With
Dephosphorylated E. Coli Succinyl-Coa Synthetase
pdb|1CQJ|B Chain B, Crystal Structure Of Dephosphorylated E. Coli Succinyl-Coa
Synthetase
pdb|1CQJ|E Chain E, Crystal Structure Of Dephosphorylated E. Coli Succinyl-Coa
Synthetase
Length = 385
Score = 28.1 bits (61), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 35/142 (24%), Positives = 57/142 (40%), Gaps = 22/142 (15%)
Query: 127 NYLGKSSRLVRYNAESETRPVD------------PEYAAGQITMFSDGYPFMLLSQGSLD 174
N+LGK RLV Y ++ +PV+ Y + S FM ++G ++
Sbjct: 75 NWLGK--RLVTYQTDANGQPVNQILVEAATDIAKELYLGAVVDRSSRRVVFMASTEGGVE 132
Query: 175 ALNKLLKE------PVPINRFRPKYNSKIRIMQY-LSIIGQHTNFFYKIASSLHCSLLEL 227
+ K+ +E V ++ + R + + L + G+ F KI L LE
Sbjct: 133 -IEKVAEETPHLIHKVALDPLTGPMPYQGRELAFKLGLEGKLVQQFTKIFMGLATIFLER 191
Query: 228 CFGLVEEPILIIASYPDSFCLD 249
L+E L+I D CLD
Sbjct: 192 DLALIEINPLVITKQGDLICLD 213
>pdb|1SCU|B Chain B, The Crystal Structure Of Succinyl-Coa Synthetase From
Escherichia Coli At 2.5 Angstroms Resolution
pdb|1SCU|E Chain E, The Crystal Structure Of Succinyl-Coa Synthetase From
Escherichia Coli At 2.5 Angstroms Resolution
pdb|2SCU|B Chain B, A Detailed Description Of The Structure Of Succinyl-Coa
Synthetase From Escherichia Coli
pdb|2SCU|E Chain E, A Detailed Description Of The Structure Of Succinyl-Coa
Synthetase From Escherichia Coli
pdb|1JKJ|B Chain B, E. Coli Scs
pdb|1JKJ|E Chain E, E. Coli Scs
pdb|2NU6|B Chain B, C123aa Mutant Of E. Coli Succinyl-Coa Synthetase
pdb|2NU6|E Chain E, C123aa Mutant Of E. Coli Succinyl-Coa Synthetase
pdb|2NU7|B Chain B, C123as Mutant Of E. Coli Succinyl-Coa Synthetase
pdb|2NU7|E Chain E, C123as Mutant Of E. Coli Succinyl-Coa Synthetase
pdb|2NU8|B Chain B, C123at Mutant Of E. Coli Succinyl-Coa Synthetase
pdb|2NU8|E Chain E, C123at Mutant Of E. Coli Succinyl-Coa Synthetase
pdb|2NU9|B Chain B, C123at Mutant Of E. Coli Succinyl-Coa Synthetase
Orthorhombic Crystal Form
pdb|2NU9|E Chain E, C123at Mutant Of E. Coli Succinyl-Coa Synthetase
Orthorhombic Crystal Form
pdb|2NU9|G Chain G, C123at Mutant Of E. Coli Succinyl-Coa Synthetase
Orthorhombic Crystal Form
pdb|2NU9|I Chain I, C123at Mutant Of E. Coli Succinyl-Coa Synthetase
Orthorhombic Crystal Form
pdb|2NUA|B Chain B, C123av Mutant Of E. Coli Succinyl-Coa Synthetase
pdb|2NUA|E Chain E, C123av Mutant Of E. Coli Succinyl-Coa Synthetase
Length = 388
Score = 27.7 bits (60), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 35/142 (24%), Positives = 57/142 (40%), Gaps = 22/142 (15%)
Query: 127 NYLGKSSRLVRYNAESETRPVD------------PEYAAGQITMFSDGYPFMLLSQGSLD 174
N+LGK RLV Y ++ +PV+ Y + S FM ++G ++
Sbjct: 75 NWLGK--RLVTYQTDANGQPVNQILVEAATDIAKELYLGAVVDRSSRRVVFMASTEGGVE 132
Query: 175 ALNKLLKE------PVPINRFRPKYNSKIRIMQY-LSIIGQHTNFFYKIASSLHCSLLEL 227
+ K+ +E V ++ + R + + L + G+ F KI L LE
Sbjct: 133 -IEKVAEETPHLIHKVALDPLTGPMPYQGRELAFKLGLEGKLVQQFTKIFMGLATIFLER 191
Query: 228 CFGLVEEPILIIASYPDSFCLD 249
L+E L+I D CLD
Sbjct: 192 DLALIEINPLVITKQGDLICLD 213
>pdb|3TEF|A Chain A, Crystal Structure Of The Periplasmic
Catecholate-Siderophore Binding Protein Vctp From Vibrio
Cholerae
Length = 292
Score = 27.7 bits (60), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 150 EYAAGQITMFSDGYPFMLLSQGSLDALNKLLKEPVPINRF--RPKYNSKIRIMQY 202
E+ G+ T+ +++ G+LDA++ EPV +++F P Y +K + +Y
Sbjct: 7 EHRLGKTTLEQKPQRVVVIGVGALDAIDSFGIEPVAVSKFDGTPDYLAKYKSDKY 61
>pdb|2JBV|A Chain A, Crystal Structure Of Choline Oxidase Reveals Insights Into
The Catalytic Mechanism
pdb|2JBV|B Chain B, Crystal Structure Of Choline Oxidase Reveals Insights Into
The Catalytic Mechanism
Length = 546
Score = 27.7 bits (60), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 10/80 (12%)
Query: 88 MQALKIPMSKPCDIADGVSVWEWSGSALDEGAEA--SNWFTNYLGKSSRLVRY------- 138
M+ + + K +IA ++ EW+G L G EA +Y+ K+ V +
Sbjct: 414 MRVMVAGIRKAREIAAQPAMAEWTGRELSPGVEAQTDEELQDYIRKTHNTVYHPVGTVRM 473
Query: 139 -NAESETRPVDPEYAAGQIT 157
E E P+DPE +T
Sbjct: 474 GAVEDEMSPLDPELRVKGVT 493
>pdb|3NNE|A Chain A, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|B Chain B, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|C Chain C, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|D Chain D, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|E Chain E, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|F Chain F, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|G Chain G, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|H Chain H, Crystal Structure Of Choline Oxidase S101a Mutant
Length = 546
Score = 27.7 bits (60), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 10/80 (12%)
Query: 88 MQALKIPMSKPCDIADGVSVWEWSGSALDEGAEA--SNWFTNYLGKSSRLVRY------- 138
M+ + + K +IA ++ EW+G L G EA +Y+ K+ V +
Sbjct: 414 MRVMVAGIRKAREIAAQPAMAEWTGRELSPGVEAQTDEELQDYIRKTHNTVYHPVGTVRM 473
Query: 139 -NAESETRPVDPEYAAGQIT 157
E E P+DPE +T
Sbjct: 474 GAVEDEMSPLDPELRVKGVT 493
>pdb|3LJP|A Chain A, Crystal Structure Of Choline Oxidase V464a Mutant
pdb|3LJP|B Chain B, Crystal Structure Of Choline Oxidase V464a Mutant
Length = 546
Score = 27.3 bits (59), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 35/80 (43%), Gaps = 10/80 (12%)
Query: 88 MQALKIPMSKPCDIADGVSVWEWSGSALDEGAEA--SNWFTNYLGKSSR-------LVRY 138
M+ + + K +IA ++ EW+G L G EA +Y+ K+ VR
Sbjct: 414 MRVMVAGIRKAREIAAQPAMAEWTGRELSPGVEAQTDEELQDYIRKTHNTAYHPVGTVRM 473
Query: 139 NA-ESETRPVDPEYAAGQIT 157
A E E P+DPE +T
Sbjct: 474 GAVEDEMSPLDPELRVKGVT 493
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
0.321 0.137 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,035,913
Number of Sequences: 62578
Number of extensions: 328379
Number of successful extensions: 669
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 667
Number of HSP's gapped (non-prelim): 11
length of query: 263
length of database: 14,973,337
effective HSP length: 97
effective length of query: 166
effective length of database: 8,903,271
effective search space: 1477942986
effective search space used: 1477942986
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: 50 (23.9 bits)