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= 037093
(282 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1GCC|A Chain A, Solution Nmr Structure Of The Complex Of Gcc-Box Binding
Domain Of Aterf1 And Gcc-Box Dna, Minimized Average
Structure
Length = 63
Score = 60.1 bits (144), Expect = 1e-09, Method: Composition-based stats.
Identities = 28/57 (49%), Positives = 34/57 (59%), Gaps = 1/57 (1%)
Query: 29 FLGVRRRPWGRYAAEIRDPSTK-ERHWLGTFDTXXXXXXXXXXXXXSMRGPRARTNF 84
+ GVR+RPWG++AAEIRDP+ R WLGTF+T MRG RA NF
Sbjct: 3 YRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNF 59
>pdb|2GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr,
Minimized Mean Structure
pdb|3GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr,
46 Structures
Length = 70
Score = 59.7 bits (143), Expect = 2e-09, Method: Composition-based stats.
Identities = 28/57 (49%), Positives = 34/57 (59%), Gaps = 1/57 (1%)
Query: 29 FLGVRRRPWGRYAAEIRDPSTK-ERHWLGTFDTXXXXXXXXXXXXXSMRGPRARTNF 84
+ GVR+RPWG++AAEIRDP+ R WLGTF+T MRG RA NF
Sbjct: 6 YRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNF 62
>pdb|2GWG|A Chain A, Crystal Structure Of 4-Oxalomesaconate Hydratase, Ligj,
From Rhodopseudomonas Palustris, Northeast Structural
Genomics Target Rpr66.
pdb|2GWG|B Chain B, Crystal Structure Of 4-Oxalomesaconate Hydratase, Ligj,
From Rhodopseudomonas Palustris, Northeast Structural
Genomics Target Rpr66
Length = 350
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 74 SMRGPRARTNFVYSDMPPGSSVTSIISPDEPQQQHQ 109
++RG RT F Y D ++I++P+E QQ ++
Sbjct: 288 AVRGIDPRTGFYYDDTKRYIEASTILTPEEKQQIYE 323
>pdb|3IJE|A Chain A, Crystal Structure Of The Complete Integrin Alhavbeta3
Ectodomain Plus An Alpha/beta Transmembrane Fragment
Length = 967
Score = 27.7 bits (60), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 38/96 (39%), Gaps = 5/96 (5%)
Query: 113 HIPSPNSHPRSEPNLQHQPFLNQDFSSGFSSTFPNVNDDHYSHNNNALSYSYTYDD---- 168
H +P + P +QH L + S FS ++ Y +NNN L Y YD
Sbjct: 762 HKENPETEEDVGPVVQHIYELRNNGPSSFSKAMLHLQW-PYKYNNNTLLYILHYDIDGPM 820
Query: 169 NNSNSTELPPLPSDLSAYAGYSTDSNVMSHSSYDEL 204
N ++ E+ PL +S+ + V D L
Sbjct: 821 NCTSDMEINPLRIKISSLQTTEKNDTVAGQGERDHL 856
>pdb|4G1M|A Chain A, Re-Refinement Of Alpha V Beta 3 Structure
Length = 959
Score = 27.7 bits (60), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 38/96 (39%), Gaps = 5/96 (5%)
Query: 113 HIPSPNSHPRSEPNLQHQPFLNQDFSSGFSSTFPNVNDDHYSHNNNALSYSYTYDD---- 168
H +P + P +QH L + S FS ++ Y +NNN L Y YD
Sbjct: 762 HKENPETEEDVGPVVQHIYELRNNGPSSFSKAMLHLQW-PYKYNNNTLLYILHYDIDGPM 820
Query: 169 NNSNSTELPPLPSDLSAYAGYSTDSNVMSHSSYDEL 204
N ++ E+ PL +S+ + V D L
Sbjct: 821 NCTSDMEINPLRIKISSLQTTEKNDTVAGQGERDHL 856
>pdb|4G1E|A Chain A, Crystal Structure Of Integrin Alpha V Beta 3 With
Coil-Coiled Tag
Length = 998
Score = 27.7 bits (60), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 38/96 (39%), Gaps = 5/96 (5%)
Query: 113 HIPSPNSHPRSEPNLQHQPFLNQDFSSGFSSTFPNVNDDHYSHNNNALSYSYTYDD---- 168
H +P + P +QH L + S FS ++ Y +NNN L Y YD
Sbjct: 762 HKENPETEEDVGPVVQHIYELRNNGPSSFSKAMLHLQW-PYKYNNNTLLYILHYDIDGPM 820
Query: 169 NNSNSTELPPLPSDLSAYAGYSTDSNVMSHSSYDEL 204
N ++ E+ PL +S+ + V D L
Sbjct: 821 NCTSDMEINPLRIKISSLQTTEKNDTVAGQGERDHL 856
>pdb|1JV2|A Chain A, Crystal Structure Of The Extracellular Segment Of Integrin
Alphavbeta3
pdb|1L5G|A Chain A, Crystal Structure Of The Extracellular Segment Of Integrin
Avb3 In Complex With An Arg-Gly-Asp Ligand
pdb|1M1X|A Chain A, Crystal Structure Of The Extracellular Segment Of Integrin
Alpha Vbeta3 Bound To Mn2+
pdb|1U8C|A Chain A, A Novel Adaptation Of The Integrin Psi Domain Revealed
From Its Crystal Structure
Length = 957
Score = 27.7 bits (60), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 38/96 (39%), Gaps = 5/96 (5%)
Query: 113 HIPSPNSHPRSEPNLQHQPFLNQDFSSGFSSTFPNVNDDHYSHNNNALSYSYTYDD---- 168
H +P + P +QH L + S FS ++ Y +NNN L Y YD
Sbjct: 762 HKENPETEEDVGPVVQHIYELRNNGPSSFSKAMLHLQW-PYKYNNNTLLYILHYDIDGPM 820
Query: 169 NNSNSTELPPLPSDLSAYAGYSTDSNVMSHSSYDEL 204
N ++ E+ PL +S+ + V D L
Sbjct: 821 NCTSDMEINPLRIKISSLQTTEKNDTVAGQGERDHL 856
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
0.313 0.128 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,418,832
Number of Sequences: 62578
Number of extensions: 277761
Number of successful extensions: 361
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 355
Number of HSP's gapped (non-prelim): 12
length of query: 282
length of database: 14,973,337
effective HSP length: 98
effective length of query: 184
effective length of database: 8,840,693
effective search space: 1626687512
effective search space used: 1626687512
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (24.3 bits)