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= 039136
(130 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3PPH|A Chain A, Crystal Structure Of The Candida Albicans Methionine
Synthase By Surface Entropy Reduction, Threonine Variant
pdb|3PPH|B Chain B, Crystal Structure Of The Candida Albicans Methionine
Synthase By Surface Entropy Reduction, Threonine Variant
Length = 789
Score = 27.3 bits (59), Expect = 2.7, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 80 LRVTQLSLNQKTKINYSDYNSYSYGVSFLNMSLLFHPF-EELQRLDLS 126
LR L QK ++ N +SY L++SLLF+ E + DL+
Sbjct: 64 LREHNWKLQQKAGVDIIPSNDFSYYDQVLDLSLLFNAIPERYTKFDLA 111
>pdb|3PPF|A Chain A, Crystal Structure Of The Candida Albicans Methionine
Synthase By Surface Entropy Reduction, Alanine Variant
Without Zinc
pdb|3PPG|A Chain A, Crystal Structure Of The Candida Albicans Methionine
Synthase By Surface Entropy Reduction, Alanine Variant
With Zinc
Length = 789
Score = 27.3 bits (59), Expect = 2.7, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 80 LRVTQLSLNQKTKINYSDYNSYSYGVSFLNMSLLFHPF-EELQRLDLS 126
LR L QK ++ N +SY L++SLLF+ E + DL+
Sbjct: 64 LREHNWKLQQKAGVDIIPSNDFSYYDQVLDLSLLFNAIPERYTKFDLA 111
>pdb|3PPC|A Chain A, Crystal Structure Of The Candida Albicans Methionine
Synthase By Surface Entropy Reduction, Tyrosine Variant
With Zinc
pdb|3PPC|B Chain B, Crystal Structure Of The Candida Albicans Methionine
Synthase By Surface Entropy Reduction, Tyrosine Variant
With Zinc
Length = 789
Score = 27.3 bits (59), Expect = 2.7, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 80 LRVTQLSLNQKTKINYSDYNSYSYGVSFLNMSLLFHPF-EELQRLDLS 126
LR L QK ++ N +SY L++SLLF+ E + DL+
Sbjct: 64 LREHNWKLQQKAGVDIIPSNDFSYYDQVLDLSLLFNAIPERYTKFDLA 111
>pdb|1FJ2|A Chain A, Crystal Structure Of The Human Acyl Protein Thioesterase 1
At 1.5 A Resolution
pdb|1FJ2|B Chain B, Crystal Structure Of The Human Acyl Protein Thioesterase 1
At 1.5 A Resolution
Length = 232
Score = 26.6 bits (57), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 53 LSSWFDDDGMSSDCCNDWEGVKCNATTLRV 82
+ SWFD G+S D D G+K A ++
Sbjct: 71 MPSWFDIIGLSPDSQEDESGIKQAAENIKA 100
>pdb|4G1M|B Chain B, Re-Refinement Of Alpha V Beta 3 Structure
Length = 692
Score = 25.8 bits (55), Expect = 7.6, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 66 CCNDWEGVKCNATTLRVTQLSLN 88
C +DW G CN TT T +S N
Sbjct: 549 CDSDWTGYYCNCTTRTDTCMSSN 571
>pdb|1JV2|B Chain B, Crystal Structure Of The Extracellular Segment Of Integrin
Alphavbeta3
pdb|1L5G|B Chain B, Crystal Structure Of The Extracellular Segment Of Integrin
Avb3 In Complex With An Arg-Gly-Asp Ligand
pdb|1M1X|B Chain B, Crystal Structure Of The Extracellular Segment Of Integrin
Alpha Vbeta3 Bound To Mn2+
pdb|1U8C|B Chain B, A Novel Adaptation Of The Integrin Psi Domain Revealed
From Its Crystal Structure
Length = 692
Score = 25.8 bits (55), Expect = 7.6, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 66 CCNDWEGVKCNATTLRVTQLSLN 88
C +DW G CN TT T +S N
Sbjct: 549 CDSDWTGYYCNCTTRTDTCMSSN 571
>pdb|4G1E|B Chain B, Crystal Structure Of Integrin Alpha V Beta 3 With
Coil-Coiled Tag
Length = 738
Score = 25.8 bits (55), Expect = 7.7, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 66 CCNDWEGVKCNATTLRVTQLSLN 88
C +DW G CN TT T +S N
Sbjct: 549 CDSDWTGYYCNCTTRTDTCMSSN 571
>pdb|3IJE|B Chain B, Crystal Structure Of The Complete Integrin Alhavbeta3
Ectodomain Plus An Alpha/beta Transmembrane Fragment
Length = 695
Score = 25.8 bits (55), Expect = 7.7, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 66 CCNDWEGVKCNATTLRVTQLSLN 88
C +DW G CN TT T +S N
Sbjct: 549 CDSDWTGYYCNCTTRTDTCMSSN 571
>pdb|3FCS|B Chain B, Structure Of Complete Ectodomain Of Integrin Aiibb3
pdb|3FCS|D Chain D, Structure Of Complete Ectodomain Of Integrin Aiibb3
Length = 690
Score = 25.8 bits (55), Expect = 7.7, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 66 CCNDWEGVKCNATTLRVTQLSLN 88
C +DW G CN TT T +S N
Sbjct: 549 CDSDWTGYYCNCTTRTDTCMSSN 571
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
0.322 0.136 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,625,690
Number of Sequences: 62578
Number of extensions: 125033
Number of successful extensions: 210
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 200
Number of HSP's gapped (non-prelim): 10
length of query: 130
length of database: 14,973,337
effective HSP length: 88
effective length of query: 42
effective length of database: 9,466,473
effective search space: 397591866
effective search space used: 397591866
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)