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= psy12271
(95 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1UUN|A Chain A, Main Porin From Mycobacteria Smegmatis (Mspa)
pdb|1UUN|B Chain B, Main Porin From Mycobacteria Smegmatis (Mspa)
Length = 184
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 6/55 (10%)
Query: 13 VGIGAGLSFPPGIFIVTSYFLKYRGLANGIAISGS------ALGSIFLPPFLRYL 61
V I A L PGI V ++ + G G+A+S + A G + L PF R +
Sbjct: 113 VSISADLGNGPGIQEVATFSVDVSGAEGGVAVSNAHGTVTGAAGGVLLRPFARLI 167
>pdb|1QPG|A Chain A, 3-Phosphoglycerate Kinase, Mutation R65q
Length = 415
Score = 27.3 bits (59), Expect = 2.3, Method: Composition-based stats.
Identities = 15/34 (44%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 43 AISGSALGSIFLPPFLRYLLESYGYRR-DTEKVR 75
A+ SA GS+ L LRY +E G R+ D +KV+
Sbjct: 105 AVKASAPGSVILLENLRYHIEEEGSRKVDGQKVK 138
>pdb|1FW8|A Chain A, Circularly Permuted Phosphoglycerate Kinase From Yeast:
Pgk P72
Length = 416
Score = 27.3 bits (59), Expect = 2.4, Method: Composition-based stats.
Identities = 15/34 (44%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 43 AISGSALGSIFLPPFLRYLLESYGYRR-DTEKVR 75
A+ SA GS+ L LRY +E G R+ D +KV+
Sbjct: 35 AVKASAPGSVILLENLRYHIEEEGSRKVDGQKVK 68
>pdb|3PGK|A Chain A, The Structure Of Yeast Phosphoglycerate Kinase At 0.25 Nm
Resolution
Length = 416
Score = 26.9 bits (58), Expect = 2.5, Method: Composition-based stats.
Identities = 15/34 (44%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 43 AISGSALGSIFLPPFLRYLLESYGYRR-DTEKVR 75
A+ SA GS+ L LRY +E G R+ D +KV+
Sbjct: 106 AVKASAPGSVILLENLRYHIEEEGSRKVDGQKVK 139
>pdb|2BKH|A Chain A, Myosin Vi Nucleotide-Free (Mdinsert2) Crystal Structure
Length = 814
Score = 26.9 bits (58), Expect = 2.6, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 20 SFPPGIFIVTSYF---LKYRGLANGIAISG-SALGSIFLPPF-LRYLLESYGYRRDTE 72
+ PP +F + +K L+ I +SG S G F LRYL ESYG +D +
Sbjct: 121 TMPPHVFAIADKAFRDMKVLKLSQSIIVSGESGAGKTENTKFVLRYLTESYGTGQDID 178
>pdb|2BKI|A Chain A, Myosin Vi Nucleotide-Free (Mdinsert2-Iq) Crystal Structure
Length = 858
Score = 26.9 bits (58), Expect = 2.6, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 20 SFPPGIFIVTSYF---LKYRGLANGIAISG-SALGSIFLPPF-LRYLLESYGYRRDTE 72
+ PP +F + +K L+ I +SG S G F LRYL ESYG +D +
Sbjct: 122 TMPPHVFAIADKAFRDMKVLKLSQSIIVSGESGAGKTENTKFVLRYLTESYGTGQDID 179
>pdb|4ANJ|A Chain A, Myosin Vi (Mdinsert2-Gfp Fusion) Pre-Powerstroke State
(Mg.Adp.Alf4)
Length = 1052
Score = 26.9 bits (58), Expect = 2.6, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 20 SFPPGIFIVTSYF---LKYRGLANGIAISG-SALGSIFLPPF-LRYLLESYGYRRDTE 72
+ PP +F + +K L+ I +SG S G F LRYL ESYG +D +
Sbjct: 122 TMPPHVFAIADKAFRDMKVLKLSQSIIVSGESGAGKTENTKFVLRYLTESYGTGQDID 179
>pdb|4E7Z|A Chain A, Myosin Vi (Md) Pre-Powerstroke State, P21 Crystal Form
pdb|4E7Z|B Chain B, Myosin Vi (Md) Pre-Powerstroke State, P21 Crystal Form
Length = 798
Score = 26.9 bits (58), Expect = 2.6, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 20 SFPPGIFIVTSYF---LKYRGLANGIAISG-SALGSIFLPPF-LRYLLESYGYRRDTE 72
+ PP +F + +K L+ I +SG S G F LRYL ESYG +D +
Sbjct: 131 TMPPHVFAIADKAFRDMKVLKLSQSIIVSGESGAGKTENTKFVLRYLTESYGTGQDID 188
>pdb|4E7S|A Chain A, Myosin Vi D23r I24r R569e (Md) Pre-Powerstroke State
pdb|4E7S|B Chain B, Myosin Vi D23r I24r R569e (Md) Pre-Powerstroke State
Length = 798
Score = 26.9 bits (58), Expect = 2.6, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 20 SFPPGIFIVTSYF---LKYRGLANGIAISG-SALGSIFLPPF-LRYLLESYGYRRDTE 72
+ PP +F + +K L+ I +SG S G F LRYL ESYG +D +
Sbjct: 131 TMPPHVFAIADKAFRDMKVLKLSQSIIVSGESGAGKTENTKFVLRYLTESYGTGQDID 188
>pdb|2X51|A Chain A, M6 Delta Insert1
Length = 789
Score = 26.9 bits (58), Expect = 2.6, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 20 SFPPGIFIVTSYF---LKYRGLANGIAISG-SALGSIFLPPF-LRYLLESYGYRRDTE 72
+ PP +F + +K L+ I +SG S G F LRYL ESYG +D +
Sbjct: 122 TMPPHVFAIADKAFRDMKVLKLSQSIIVSGESGAGKTENTKFVLRYLTESYGTGQDID 179
>pdb|3L9I|A Chain A, Myosin Vi Nucleotide-Free (Mdinsert2) L310g Mutant Crystal
Structure
Length = 814
Score = 26.9 bits (58), Expect = 2.6, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 20 SFPPGIFIVTSYF---LKYRGLANGIAISG-SALGSIFLPPF-LRYLLESYGYRRDTE 72
+ PP +F + +K L+ I +SG S G F LRYL ESYG +D +
Sbjct: 121 TMPPHVFAIADKAFRDMKVLKLSQSIIVSGESGAGKTENTKFVLRYLTESYGTGQDID 178
>pdb|2VAS|A Chain A, Myosin Vi (Md-Insert2-Cam, Delta-Insert1) Post-Rigor State
pdb|2VB6|A Chain A, Myosin Vi (Md-Insert2-Cam, Delta Insert1) Post-Rigor State
( Crystal Form 2)
Length = 788
Score = 26.9 bits (58), Expect = 2.6, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 20 SFPPGIFIVTSYF---LKYRGLANGIAISG-SALGSIFLPPF-LRYLLESYGYRRDTE 72
+ PP +F + +K L+ I +SG S G F LRYL ESYG +D +
Sbjct: 121 TMPPHVFAIADKAFRDMKVLKLSQSIIVSGESGAGKTENTKFVLRYLTESYGTGQDID 178
>pdb|2V26|A Chain A, Myosin Vi (Md) Pre-Powerstroke State (Mg.Adp.Vo4)
Length = 784
Score = 26.9 bits (58), Expect = 2.6, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 20 SFPPGIFIVTSYF---LKYRGLANGIAISG-SALGSIFLPPF-LRYLLESYGYRRDTE 72
+ PP +F + +K L+ I +SG S G F LRYL ESYG +D +
Sbjct: 118 TMPPHVFAIADKAFRDMKVLKLSQSIIVSGESGAGKTENTKFVLRYLTESYGTGQDID 175
>pdb|4DBR|A Chain A, Myosin Vi D179y (md) Pre-powerstroke State
Length = 786
Score = 26.6 bits (57), Expect = 3.3, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 27/56 (48%), Gaps = 5/56 (8%)
Query: 20 SFPPGIFIVTSYF---LKYRGLANGIAISG-SALGSIFLPPF-LRYLLESYGYRRD 70
+ PP +F + +K L+ I +SG S G F LRYL ESYG +D
Sbjct: 119 TMPPHVFAIADKAFRDMKVLKLSQSIIVSGESGAGKTENTKFVLRYLTESYGTGQD 174
>pdb|4DBQ|A Chain A, Myosin Vi D179y (md-insert2-cam, Delta-insert1) Post-rigor
State
Length = 788
Score = 26.6 bits (57), Expect = 3.3, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 27/56 (48%), Gaps = 5/56 (8%)
Query: 20 SFPPGIFIVTSYF---LKYRGLANGIAISG-SALGSIFLPPF-LRYLLESYGYRRD 70
+ PP +F + +K L+ I +SG S G F LRYL ESYG +D
Sbjct: 121 TMPPHVFAIADKAFRDMKVLKLSQSIIVSGESGAGKTENTKFVLRYLTESYGTGQD 176
>pdb|4DBP|A Chain A, Myosin Vi Nucleotide-free (mdinsert2) D179y Crystal
Structure
Length = 814
Score = 26.6 bits (57), Expect = 3.3, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 27/56 (48%), Gaps = 5/56 (8%)
Query: 20 SFPPGIFIVTSYF---LKYRGLANGIAISG-SALGSIFLPPF-LRYLLESYGYRRD 70
+ PP +F + +K L+ I +SG S G F LRYL ESYG +D
Sbjct: 121 TMPPHVFAIADKAFRDMKVLKLSQSIIVSGESGAGKTENTKFVLRYLTESYGTGQD 176
>pdb|2V9U|A Chain A, Rim Domain Of Main Porin From Mycobacteria Smegmatis
pdb|2V9U|B Chain B, Rim Domain Of Main Porin From Mycobacteria Smegmatis
pdb|2V9U|C Chain C, Rim Domain Of Main Porin From Mycobacteria Smegmatis
pdb|2V9U|D Chain D, Rim Domain Of Main Porin From Mycobacteria Smegmatis
pdb|2V9U|E Chain E, Rim Domain Of Main Porin From Mycobacteria Smegmatis
pdb|2V9U|F Chain F, Rim Domain Of Main Porin From Mycobacteria Smegmatis
pdb|2V9U|G Chain G, Rim Domain Of Main Porin From Mycobacteria Smegmatis
pdb|2V9U|H Chain H, Rim Domain Of Main Porin From Mycobacteria Smegmatis
Length = 132
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 6/45 (13%)
Query: 23 PGIFIVTSYFLKYRGLANGIAISGS------ALGSIFLPPFLRYL 61
PGI V ++ + G G+A+S + A G + L PF R +
Sbjct: 71 PGIQEVATFSVDVSGAEGGVAVSNAHGTVTGAAGGVLLRPFARLI 115
>pdb|3A1F|A Chain A, The Crystal Structure Of Nadph Binding Domain Of
Gp91(Phox)
Length = 186
Score = 25.8 bits (55), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 22/44 (50%)
Query: 2 SSHFAFSYGVFVGIGAGLSFPPGIFIVTSYFLKYRGLANGIAIS 45
+S FSY V + +GAG+ P I+ S + KY A + +
Sbjct: 10 ASEDVFSYEVVMLVGAGIGVTPFASILKSVWYKYCNNATNLKLK 53
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
0.328 0.148 0.446
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,293,419
Number of Sequences: 62578
Number of extensions: 78676
Number of successful extensions: 164
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 163
Number of HSP's gapped (non-prelim): 18
length of query: 95
length of database: 14,973,337
effective HSP length: 62
effective length of query: 33
effective length of database: 11,093,501
effective search space: 366085533
effective search space used: 366085533
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 45 (21.9 bits)