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= 022017
(304 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 = 4e-06, Method: Compositional matrix adjust.
Identities = 35/129 (27%), Positives = 61/129 (47%), Gaps = 21/129 (16%)
Query: 14 PIKSCRGISVSQAPLTPTGFRWDRQWMVINNKGRAYTQRNEPKLALVQIELPNEAFLEGW 73
PI C + S+A + ++W+V N+ G+ + P+LA V +EL
Sbjct: 8 PIAECGATTQSEAA------AYQKRWLVANDAGQWLNRDLCPRLAEVSVEL--------- 52
Query: 74 EPTGSSYMVIRAPGMQALKIPMSKPCD---IADGVSVWEWSGSALDEGAEASNWFTNYLG 130
Y+V++APGM L IP+ D + + V E + +DEG A+ W +N+ G
Sbjct: 53 ---RMGYLVLKAPGMLRLDIPLDVIEDDDSVRYQMLVGEQTVDVVDEGELAAAWISNHAG 109
Query: 131 KSSRLVRYN 139
R+++ +
Sbjct: 110 VPCRILKVH 118
>pdb|1WGZ|A Chain A, Crystal Structure Of Carboxypeptidase 1 From Thermus
Thermophilus
pdb|1WGZ|B Chain B, Crystal Structure Of Carboxypeptidase 1 From Thermus
Thermophilus
pdb|1WGZ|C Chain C, Crystal Structure Of Carboxypeptidase 1 From Thermus
Thermophilus
Length = 510
Score = 31.2 bits (69), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 36/148 (24%), Positives = 56/148 (37%), Gaps = 38/148 (25%)
Query: 52 RNEPKLALVQIELPNEAFLEGWEPTGSSYMVIRAPGMQALKIPMSKPCDIADGV-SVWEW 110
R E +LAL + EL E E W ++ + P D DGV W
Sbjct: 373 RLELELALFRGELSPEDLPEAWAEKYRDHLGV-------------APKDYKDGVMQDVHW 419
Query: 111 SGSALDEGAEASNWFTNYLGKSSRLVRY--NAESETRPVDPEYAAGQITMFSDGYPFMLL 168
+G +F Y + ++ AE+E P++P +A G+ F D +
Sbjct: 420 AGGLF-------GYFPTYTLGNLYAAQFFQKAEAELGPLEPRFARGEFQPFLDWTRARIH 472
Query: 169 SQGSLDALNKLLKEPVPINRFRPNILVD 196
++GS RFRP +LV+
Sbjct: 473 AEGS---------------RFRPRVLVE 485
>pdb|3HOA|A Chain A, Crystal Structure Of The Thermus Thermophilus M32
Carboxypeptidase
pdb|3HOA|B Chain B, Crystal Structure Of The Thermus Thermophilus M32
Carboxypeptidase
Length = 509
Score = 31.2 bits (69), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 36/148 (24%), Positives = 56/148 (37%), Gaps = 38/148 (25%)
Query: 52 RNEPKLALVQIELPNEAFLEGWEPTGSSYMVIRAPGMQALKIPMSKPCDIADGV-SVWEW 110
R E +LAL + EL E E W ++ + P D DGV W
Sbjct: 373 RLELELALFRGELSPEDLPEAWAEKYRDHLGV-------------APKDYKDGVMQDVHW 419
Query: 111 SGSALDEGAEASNWFTNYLGKSSRLVRY--NAESETRPVDPEYAAGQITMFSDGYPFMLL 168
+G +F Y + ++ AE+E P++P +A G+ F D +
Sbjct: 420 AGGLF-------GYFPTYTLGNLYAAQFFQKAEAELGPLEPRFARGEFQPFLDWTRARIH 472
Query: 169 SQGSLDALNKLLKEPVPINRFRPNILVD 196
++GS RFRP +LV+
Sbjct: 473 AEGS---------------RFRPRVLVE 485
>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 = 8.7, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 10/80 (12%)
Query: 88 MQALKIPMSKPCDIADGVSVWEWSGSALDEGAEASN--WFTNYLGKSSRLVRY------- 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 = 8.9, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 10/80 (12%)
Query: 88 MQALKIPMSKPCDIADGVSVWEWSGSALDEGAEASN--WFTNYLGKSSRLVRY------- 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
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
0.317 0.134 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,666,797
Number of Sequences: 62578
Number of extensions: 416049
Number of successful extensions: 779
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 777
Number of HSP's gapped (non-prelim): 5
length of query: 304
length of database: 14,973,337
effective HSP length: 98
effective length of query: 206
effective length of database: 8,840,693
effective search space: 1821182758
effective search space used: 1821182758
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)