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= psy4713
(103 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3CH4|B Chain B, The Crystal Structure Of Human Phosphomavelonate Kinase
At 1.8 A Resolution
Length = 202
Score = 103 bits (258), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 45/90 (50%), Positives = 65/90 (72%)
Query: 4 PKLILLFSGKRKSGKDFLTDYLLERIGSQHCAIIRLSAPIKSHWAKQNGLEMDKLLGATK 63
P+L+LLFSGKRKSGKDF+T+ L R+G+ CA++RLS P+K +A+++GL +LL +
Sbjct: 10 PRLVLLFSGKRKSGKDFVTEALQSRLGADVCAVLRLSGPLKEQYAQEHGLNFQRLLDTST 69
Query: 64 YKEKYRAEMITWSEAERRKDNGCFIRSAIE 93
YKE +R +MI W E +R+ D G F R +E
Sbjct: 70 YKEAFRKDMIRWGEEKRQADPGFFCRKIVE 99
>pdb|2HRF|A Chain A, Solution Structure Of Cu(i) P174l Hsco1
pdb|2HRN|A Chain A, Solution Structure Of Cu(I) P174l-Hsco1
Length = 173
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 11 SGKRKSGKDFLTDYLLERIGSQHCAIIRL 39
+G+RK+ KD+L +LL G HC + L
Sbjct: 18 TGERKTDKDYLGQWLLIYFGFTHCPDVCL 46
>pdb|1DEK|A Chain A, Deoxynucleoside Monophosphate Kinase Complexed With
Deoxy-Gmp
pdb|1DEK|B Chain B, Deoxynucleoside Monophosphate Kinase Complexed With
Deoxy-Gmp
Length = 241
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 27/45 (60%), Gaps = 6/45 (13%)
Query: 5 KLILLFSGKRKSGKDFLTDYLLERIGSQHCAI-IRLSAPIKSHWA 48
KLI L SG ++SGKD D+++ S + A+ +L+ PIK A
Sbjct: 2 KLIFL-SGVKRSGKDTTADFIM----SNYSAVKYQLAGPIKDALA 41
>pdb|1DEL|A Chain A, Deoxynucleoside Monophosphate Kinase Complexed With
Deoxy-Gmp And Amp
pdb|1DEL|B Chain B, Deoxynucleoside Monophosphate Kinase Complexed With
Deoxy-Gmp And Amp
Length = 241
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 27/45 (60%), Gaps = 6/45 (13%)
Query: 5 KLILLFSGKRKSGKDFLTDYLLERIGSQHCAI-IRLSAPIKSHWA 48
KLI L SG ++SGKD D+++ S + A+ +L+ PIK A
Sbjct: 2 KLIFL-SGVKRSGKDTTADFIM----SNYSAVKYQLAGPIKDALA 41
>pdb|2GGT|A Chain A, Crystal Structure Of Human Sco1 Complexed With Nickel.
pdb|2GGT|B Chain B, Crystal Structure Of Human Sco1 Complexed With Nickel
Length = 164
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 11 SGKRKSGKDFLTDYLLERIGSQHCAII 37
+G+RK+ KD+L +LL G HC +
Sbjct: 12 TGERKTDKDYLGQWLLIYFGFTHCPDV 38
>pdb|2GQK|A Chain A, Solution Structure Of Human Ni(Ii)-Sco1
pdb|2GQL|A Chain A, Solution Structure Of Human Ni(Ii)-Sco1
pdb|2GQM|A Chain A, Solution Structure Of Human Cu(I)-Sco1
pdb|2GT5|A Chain A, Solution Structure Of Apo Human Sco1
pdb|2GT6|A Chain A, Solution Structure Of Human Cu(I) Sco1
pdb|2GVP|A Chain A, Solution Structure Of Human Apo Sco1
Length = 173
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 11 SGKRKSGKDFLTDYLLERIGSQHCAII 37
+G+RK+ KD+L +LL G HC +
Sbjct: 18 TGERKTDKDYLGQWLLIYFGFTHCPDV 44
>pdb|1WP0|A Chain A, Human Sco1
pdb|1WP0|B Chain B, Human Sco1
pdb|1WP0|C Chain C, Human Sco1
Length = 165
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 11 SGKRKSGKDFLTDYLLERIGSQHCAII 37
+G+RK+ KD+L +LL G HC +
Sbjct: 10 TGERKTDKDYLGQWLLIYFGFTHCPDV 36
>pdb|4ACQ|A Chain A, Alpha-2 Macroglobulin
pdb|4ACQ|B Chain B, Alpha-2 Macroglobulin
pdb|4ACQ|C Chain C, Alpha-2 Macroglobulin
pdb|4ACQ|D Chain D, Alpha-2 Macroglobulin
Length = 1451
Score = 26.9 bits (58), Expect = 3.1, Method: Composition-based stats.
Identities = 12/34 (35%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 66 EKYRAEMITWSEAERRKDNGCFIRSAIEMAHAMK 99
E + + + W ++R+KDNGCF S + +A+K
Sbjct: 1037 EAHITQALIWL-SQRQKDNGCFRSSGSLLNNAIK 1069
>pdb|1NGX|B Chain B, Chimeric Germline Fab 7g12 With Jeffamine Fragment Bound
pdb|1NGX|H Chain H, Chimeric Germline Fab 7g12 With Jeffamine Fragment Bound
Length = 216
Score = 26.2 bits (56), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 7/33 (21%)
Query: 46 HWAKQN---GLE----MDKLLGATKYKEKYRAE 71
HW KQ GLE +D G TKY EK++++
Sbjct: 35 HWVKQRPGRGLEWIGRIDPNSGGTKYNEKFKSK 67
>pdb|1N7M|L Chain L, Germline 7g12 With N-Methylmesoporphyrin
Length = 216
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 7/33 (21%)
Query: 46 HWAKQN---GLE----MDKLLGATKYKEKYRAE 71
HW KQ GLE +D G TKY EK++++
Sbjct: 35 HWVKQRPGRGLEWIGRIDPNSGGTKYNEKFKSK 67
>pdb|1NGZ|B Chain B, Chimeric Germline Fab 7g12-Apo
Length = 220
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 7/33 (21%)
Query: 46 HWAKQN---GLE----MDKLLGATKYKEKYRAE 71
HW KQ GLE +D G TKY EK++++
Sbjct: 35 HWVKQRPGRGLEWIGRIDPNSGGTKYNEKFKSK 67
>pdb|3FCT|B Chain B, Mature Metal Chelatase Catalytic Antibody With Hapten
pdb|3FCT|D Chain D, Mature Metal Chelatase Catalytic Antibody With Hapten
pdb|1NGW|H Chain H, Chimeric Affinity Matured Fab 7g12 Complexed With
Mesoporphyrin
pdb|1NGW|B Chain B, Chimeric Affinity Matured Fab 7g12 Complexed With
Mesoporphyrin
Length = 216
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 7/33 (21%)
Query: 46 HWAKQN---GLE----MDKLLGATKYKEKYRAE 71
HW KQ GLE +D G TKY EK++++
Sbjct: 35 HWVKQRPGRGLEWIGMIDPNSGGTKYNEKFKSK 67
>pdb|1NGY|B Chain B, Chimeric Mature Fab 7g12-Apo
Length = 216
Score = 26.2 bits (56), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 7/33 (21%)
Query: 46 HWAKQN---GLE----MDKLLGATKYKEKYRAE 71
HW KQ GLE +D G TKY EK++++
Sbjct: 35 HWVKQRPGRGLEWIGMIDPNSGGTKYNEKFKSK 67
>pdb|1NGQ|H Chain H, N1g9 (igg1-lambda) Fab Fragment
pdb|1NGP|H Chain H, N1g9 (Igg1-Lambda) Fab Fragment Complexed With
(4-Hydroxy-3- Nitrophenyl) Acetate
Length = 222
Score = 25.8 bits (55), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 7/33 (21%)
Query: 46 HWAKQN---GLE----MDKLLGATKYKEKYRAE 71
HW KQ GLE +D G TKY EK++++
Sbjct: 35 HWVKQRPGRGLEWIGRIDPNSGGTKYNEKFKSK 67
>pdb|3RUK|A Chain A, Human Cytochrome P450 Cyp17a1 In Complex With Abiraterone
pdb|3RUK|B Chain B, Human Cytochrome P450 Cyp17a1 In Complex With Abiraterone
pdb|3RUK|C Chain C, Human Cytochrome P450 Cyp17a1 In Complex With Abiraterone
pdb|3RUK|D Chain D, Human Cytochrome P450 Cyp17a1 In Complex With Abiraterone
pdb|3SWZ|A Chain A, Human Cytochrome P450 17a1 In Complex With Tok-001
pdb|3SWZ|B Chain B, Human Cytochrome P450 17a1 In Complex With Tok-001
pdb|3SWZ|C Chain C, Human Cytochrome P450 17a1 In Complex With Tok-001
pdb|3SWZ|D Chain D, Human Cytochrome P450 17a1 In Complex With Tok-001
Length = 494
Score = 25.8 bits (55), Expect = 6.4, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 28/48 (58%), Gaps = 8/48 (16%)
Query: 43 IKSHWAKQNGLEMDKLLGATKYKEKYRAEMI-----TWSEAERRKDNG 85
+KSH +N L ++K+L YKEK+R++ I T +A+ DNG
Sbjct: 214 LKSHVKIRNDL-LNKIL--ENYKEKFRSDSITNMLDTLMQAKMNSDNG 258
>pdb|1NQB|A Chain A, Trivalent Antibody Fragment
pdb|1NQB|C Chain C, Trivalent Antibody Fragment
Length = 256
Score = 25.8 bits (55), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 7/33 (21%)
Query: 46 HWAKQN---GLE----MDKLLGATKYKEKYRAE 71
HW KQ GLE +D G TKY EK++++
Sbjct: 35 HWVKQRPGRGLEWIGRIDPNSGGTKYNEKFKSK 67
>pdb|1A6U|H Chain H, B1-8 Fv Fragment
pdb|1A6V|H Chain H, B1-8 Fv Fragment Complexed With A
(4-Hydroxy-3-Nitrophenyl) Acetate Compound
pdb|1A6V|I Chain I, B1-8 Fv Fragment Complexed With A
(4-Hydroxy-3-Nitrophenyl) Acetate Compound
pdb|1A6V|J Chain J, B1-8 Fv Fragment Complexed With A
(4-Hydroxy-3-Nitrophenyl) Acetate Compound
pdb|1A6W|H Chain H, B1-8 Fv Fragment Complexed With A (4-Hydroxy-5-Iodo-3-
Nitrophenyl) Acetate Compound
Length = 120
Score = 25.4 bits (54), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 7/33 (21%)
Query: 46 HWAKQN---GLE----MDKLLGATKYKEKYRAE 71
HW KQ GLE +D G TKY EK++++
Sbjct: 35 HWVKQRPGRGLEWIGRIDPNSGGTKYNEKFKSK 67
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 0.134 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,988,465
Number of Sequences: 62578
Number of extensions: 104557
Number of successful extensions: 353
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 348
Number of HSP's gapped (non-prelim): 19
length of query: 103
length of database: 14,973,337
effective HSP length: 68
effective length of query: 35
effective length of database: 10,718,033
effective search space: 375131155
effective search space used: 375131155
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)