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= 004273
(764 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RJO|A Chain A, Crystal Structure Of Erap1 Peptide Binding Domain
Length = 419
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 42/85 (49%), Gaps = 6/85 (7%)
Query: 50 SISKATQMQIVDALCRGERSRASHLLLNLGHAHHSLGADDFFHILNYCARSP--DPL--- 104
S+S + QI ALCR + LL+ + +F IL R+P PL
Sbjct: 264 SLSSTEKSQIEFALCRTQNKEKLQWLLDESFKGDKIKTQEFPQILTLIGRNPVGYPLAWQ 323
Query: 105 FVMETW-RMMEEKEIGLNNKCYLLM 128
F+ + W +++++ E+G ++ +++M
Sbjct: 324 FLRKNWNKLVQKFELGSSSIAHMVM 348
>pdb|3QNF|A Chain A, Crystal Structure Of The Open State Of Human Endoplasmic
Reticulum Aminopeptidase 1 Erap1
pdb|3QNF|B Chain B, Crystal Structure Of The Open State Of Human Endoplasmic
Reticulum Aminopeptidase 1 Erap1
pdb|3QNF|C Chain C, Crystal Structure Of The Open State Of Human Endoplasmic
Reticulum Aminopeptidase 1 Erap1
Length = 954
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 42/85 (49%), Gaps = 6/85 (7%)
Query: 50 SISKATQMQIVDALCRGERSRASHLLLNLGHAHHSLGADDFFHILNYCARSP--DPL--- 104
S+S + QI ALCR + LL+ + +F IL R+P PL
Sbjct: 798 SLSSTEKSQIEFALCRTQNKEKLQWLLDESFKGDKIKTQEFPQILTLIGRNPVGYPLAWQ 857
Query: 105 FVMETW-RMMEEKEIGLNNKCYLLM 128
F+ + W +++++ E+G ++ +++M
Sbjct: 858 FLRKNWNKLVQKFELGSSSIAHMVM 882
>pdb|2YD0|A Chain A, Crystal Structure Of The Soluble Domain Of Human
Endoplasmic Reticulum Aminopeptidase 1 Erap1
Length = 897
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 42/85 (49%), Gaps = 6/85 (7%)
Query: 50 SISKATQMQIVDALCRGERSRASHLLLNLGHAHHSLGADDFFHILNYCARSP--DPL--- 104
S+S + QI ALCR + LL+ + +F IL R+P PL
Sbjct: 747 SLSSTEKSQIEFALCRTQNKEKLQWLLDESFKGDKIKTQEFPQILTLIGRNPVGYPLAWQ 806
Query: 105 FVMETW-RMMEEKEIGLNNKCYLLM 128
F+ + W +++++ E+G ++ +++M
Sbjct: 807 FLRKNWNKLVQKFELGSSSIAHMVM 831
>pdb|3MDJ|A Chain A, Er Aminopeptidase, Erap1, Bound To The Zinc Aminopeptidase
Inhibitor, Bestatin
pdb|3MDJ|B Chain B, Er Aminopeptidase, Erap1, Bound To The Zinc Aminopeptidase
Inhibitor, Bestatin
pdb|3MDJ|C Chain C, Er Aminopeptidase, Erap1, Bound To The Zinc Aminopeptidase
Inhibitor, Bestatin
Length = 921
Score = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 42/85 (49%), Gaps = 6/85 (7%)
Query: 50 SISKATQMQIVDALCRGERSRASHLLLNLGHAHHSLGADDFFHILNYCARSP--DPL--- 104
S+S + QI ALCR + LL+ + +F IL R+P PL
Sbjct: 756 SLSSTEKSQIEFALCRTQNKEKLQWLLDESFKGDKIKTQEFPQILTLIGRNPVGYPLAWQ 815
Query: 105 FVMETW-RMMEEKEIGLNNKCYLLM 128
F+ + W +++++ E+G ++ +++M
Sbjct: 816 FLRKNWNKLVQKFELGSSSIAHMVM 840
>pdb|3GZC|A Chain A, Structure Of Human Selenocysteine Lyase
pdb|3GZC|B Chain B, Structure Of Human Selenocysteine Lyase
pdb|3GZD|C Chain C, Human Selenocysteine Lyase, P1 Crystal Form
Length = 440
Score = 30.0 bits (66), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 16/74 (21%), Positives = 34/74 (45%), Gaps = 2/74 (2%)
Query: 395 PKPFSAFLAACDTMDKPERAIKIFAKMRQKLRPDI--RTYELLFSLFGNVNAPYEEGNMF 452
P P ++ + C + PER + + L P++ + ++ +GN ++PY G
Sbjct: 7 PAPAASQPSGCGKHNSPERKVYMDYNATTPLEPEVIQAMTKAMWEAWGNPSSPYSAGRKA 66
Query: 453 SQVDSAKRINAIEM 466
+ +A R + +M
Sbjct: 67 KDIINAARESLAKM 80
>pdb|3GZD|A Chain A, Human Selenocysteine Lyase, P1 Crystal Form
pdb|3GZD|B Chain B, Human Selenocysteine Lyase, P1 Crystal Form
pdb|3GZD|D Chain D, Human Selenocysteine Lyase, P1 Crystal Form
Length = 440
Score = 30.0 bits (66), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 15/68 (22%), Positives = 31/68 (45%), Gaps = 2/68 (2%)
Query: 395 PKPFSAFLAACDTMDKPERAIKIFAKMRQKLRPDI--RTYELLFSLFGNVNAPYEEGNMF 452
P P ++ + C + PER + + L P++ + ++ +GN ++PY G
Sbjct: 7 PAPAASQPSGCGKHNSPERKVYMDYNATTPLEPEVIQAMTKAMWEAWGNPSSPYSAGRKA 66
Query: 453 SQVDSAKR 460
+ +A R
Sbjct: 67 KDIINAAR 74
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 29.3 bits (64), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 38/96 (39%), Gaps = 9/96 (9%)
Query: 512 YNTVLH--SLVEAQESH-------RAMEIFKQMKTCGIPPNAATYNIMIDCCSIIRCFKS 562
YN +L+ SL EA R +IFKQM + PN AT+ +
Sbjct: 64 YNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEM 123
Query: 563 ASALVSMMVRDGFYPQTMTYTALIKILLDYGDFDEA 598
A +V M G P+ +Y + GD D+A
Sbjct: 124 AFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKA 159
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
0.323 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: 20,439,987
Number of Sequences: 62578
Number of extensions: 772892
Number of successful extensions: 1604
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1602
Number of HSP's gapped (non-prelim): 7
length of query: 764
length of database: 14,973,337
effective HSP length: 106
effective length of query: 658
effective length of database: 8,340,069
effective search space: 5487765402
effective search space used: 5487765402
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (25.8 bits)