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= 023044
(288 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
Length = 3367
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 36/133 (27%), Positives = 55/133 (41%), Gaps = 18/133 (13%)
Query: 129 MVEDEQTEE-----PIRLIVDIDFKSQFELARPTQAYKELTNILPSIFVGQEEKLNKIIS 183
MV+D+Q E L V +D +++ + +AY +L P+I QE
Sbjct: 1964 MVQDQQAAEIKQKDARELQVQLDVRNKEIAVQKVKAYADLEKAEPAIIEAQEA------- 2016
Query: 184 LLCSAAKQSLKE-RGLHIPPWRTSTYMHSKWLSAGCQKCSENIESAFGRKNIEEENRSAS 242
+ + K+ L E + L PP M + L G +K +E A RK I E N S
Sbjct: 2017 -VSTIKKKHLDEIKSLPKPPTPVKLAMEAVCLMLGGKK----LEWADIRKKIMEPNFITS 2071
Query: 243 VGNVAISMVKNPK 255
+ N + PK
Sbjct: 2072 IINYDTKKMMTPK 2084
>pdb|4ANJ|A Chain A, Myosin Vi (Mdinsert2-Gfp Fusion) Pre-Powerstroke State
(Mg.Adp.Alf4)
Length = 1052
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 6/55 (10%)
Query: 173 GQEEKLNKIISLLCSAAKQSLKERGLHIPPWRTSTYMHSKWLSAGCQKCSENIES 227
G+EE+ I LC+ A + ++ER LH+ S+ + ++L+ GC + N E+
Sbjct: 239 GKEERNYHIFYRLCAGASEDIRER-LHL-----SSPDNFRYLNRGCTRYFANKET 287
>pdb|4DBR|A Chain A, Myosin Vi D179y (md) Pre-powerstroke State
Length = 786
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 6/55 (10%)
Query: 173 GQEEKLNKIISLLCSAAKQSLKERGLHIPPWRTSTYMHSKWLSAGCQKCSENIES 227
G+EE+ I LC+ A + ++ER LH+ S+ + ++L+ GC + N E+
Sbjct: 236 GKEERNYHIFYRLCAGASEDIRER-LHL-----SSPDNFRYLNRGCTRYFANKET 284
>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 = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 6/55 (10%)
Query: 173 GQEEKLNKIISLLCSAAKQSLKERGLHIPPWRTSTYMHSKWLSAGCQKCSENIES 227
G+EE+ I LC+ A + ++ER LH+ S+ + ++L+ GC + N E+
Sbjct: 248 GKEERNYHIFYRLCAGASEDIRER-LHL-----SSPDNFRYLNRGCTRYFANKET 296
>pdb|2V26|A Chain A, Myosin Vi (Md) Pre-Powerstroke State (Mg.Adp.Vo4)
Length = 784
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 6/55 (10%)
Query: 173 GQEEKLNKIISLLCSAAKQSLKERGLHIPPWRTSTYMHSKWLSAGCQKCSENIES 227
G+EE+ I LC+ A + ++ER LH+ S+ + ++L+ GC + N E+
Sbjct: 235 GKEERNYHIFYRLCAGASEDIRER-LHL-----SSPDNFRYLNRGCTRYFANKET 283
>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 = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 6/55 (10%)
Query: 173 GQEEKLNKIISLLCSAAKQSLKERGLHIPPWRTSTYMHSKWLSAGCQKCSENIES 227
G+EE+ I LC+ A + ++ER LH+ S+ + ++L+ GC + N E+
Sbjct: 248 GKEERNYHIFYRLCAGASEDIRER-LHL-----SSPDNFRYLNRGCTRYFANKET 296
>pdb|3L9I|A Chain A, Myosin Vi Nucleotide-Free (Mdinsert2) L310g Mutant Crystal
Structure
Length = 814
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 6/55 (10%)
Query: 173 GQEEKLNKIISLLCSAAKQSLKERGLHIPPWRTSTYMHSKWLSAGCQKCSENIES 227
G+EE+ I LC+ A + ++ER LH+ S+ + ++L+ GC + N E+
Sbjct: 238 GKEERNYHIFYRLCAGASEDIRER-LHL-----SSPDNFRYLNRGCTRYFANKET 286
>pdb|2BKH|A Chain A, Myosin Vi Nucleotide-Free (Mdinsert2) Crystal Structure
Length = 814
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 6/55 (10%)
Query: 173 GQEEKLNKIISLLCSAAKQSLKERGLHIPPWRTSTYMHSKWLSAGCQKCSENIES 227
G+EE+ I LC+ A + ++ER LH+ S+ + ++L+ GC + N E+
Sbjct: 238 GKEERNYHIFYRLCAGASEDIRER-LHL-----SSPDNFRYLNRGCTRYFANKET 286
>pdb|4DBP|A Chain A, Myosin Vi Nucleotide-free (mdinsert2) D179y Crystal
Structure
Length = 814
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 6/55 (10%)
Query: 173 GQEEKLNKIISLLCSAAKQSLKERGLHIPPWRTSTYMHSKWLSAGCQKCSENIES 227
G+EE+ I LC+ A + ++ER LH+ S+ + ++L+ GC + N E+
Sbjct: 238 GKEERNYHIFYRLCAGASEDIRER-LHL-----SSPDNFRYLNRGCTRYFANKET 286
>pdb|2BKI|A Chain A, Myosin Vi Nucleotide-Free (Mdinsert2-Iq) Crystal Structure
Length = 858
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 6/55 (10%)
Query: 173 GQEEKLNKIISLLCSAAKQSLKERGLHIPPWRTSTYMHSKWLSAGCQKCSENIES 227
G+EE+ I LC+ A + ++ER LH+ S+ + ++L+ GC + N E+
Sbjct: 239 GKEERNYHIFYRLCAGASEDIRER-LHL-----SSPDNFRYLNRGCTRYFANKET 287
>pdb|3OAA|D Chain D, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|E Chain E, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|F Chain F, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|L Chain L, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|M Chain M, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|N Chain N, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|T Chain T, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|U Chain U, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|V Chain V, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|BB Chain b, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|CC Chain c, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|DD Chain d, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
Length = 459
Score = 27.3 bits (59), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 59/138 (42%), Gaps = 15/138 (10%)
Query: 58 NTEAEKEVLERVKKHLVMRSRRDGVLLKSSNGLKKWLVRKLKM---DGFNASLCHTSWAT 114
+ E ++ + RV L +++ + ++L+ L +VR + M DG L
Sbjct: 14 DVEFPQDAVPRVYDALEVQNGNERLVLEVQQQLGGGIVRTIAMGSSDGLRRGLDVKDLEH 73
Query: 115 SSGCPAGDYEYIDIMVEDEQTEEPIRLIVDIDFKSQFELARPTQAYKELTNILPSIFVGQ 174
P G+ IM EP+ + +I + ++ + R +Y+EL+N Q
Sbjct: 74 PIEVPVGEATLGRIM---NVLGEPVDMKGEIGEEERWAIHRAAPSYEELSN-------SQ 123
Query: 175 E--EKLNKIISLLCSAAK 190
E E K+I L+C AK
Sbjct: 124 ELLETGIKVIDLMCPFAK 141
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
0.317 0.131 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,105,309
Number of Sequences: 62578
Number of extensions: 255458
Number of successful extensions: 721
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 718
Number of HSP's gapped (non-prelim): 16
length of query: 288
length of database: 14,973,337
effective HSP length: 98
effective length of query: 190
effective length of database: 8,840,693
effective search space: 1679731670
effective search space used: 1679731670
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)