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= psy5722
(86 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2Y5W|A Chain A, Crystal Structure Of Drosophila Melanogaster Kinesin-1
Motor Domain Dimer
pdb|2Y5W|B Chain B, Crystal Structure Of Drosophila Melanogaster Kinesin-1
Motor Domain Dimer
pdb|2Y65|A Chain A, Crystal Structure Of Drosophila Melanogaster Kinesin-1
Motor Domain Dimer-Tail Complex
pdb|2Y65|B Chain B, Crystal Structure Of Drosophila Melanogaster Kinesin-1
Motor Domain Dimer-Tail Complex
pdb|2Y65|C Chain C, Crystal Structure Of Drosophila Melanogaster Kinesin-1
Motor Domain Dimer-Tail Complex
pdb|2Y65|D Chain D, Crystal Structure Of Drosophila Melanogaster Kinesin-1
Motor Domain Dimer-Tail Complex
Length = 365
Score = 77.8 bits (190), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 35/47 (74%), Positives = 41/47 (87%)
Query: 7 ADREIAAEDSIRVVCRFRPLNHSEEKAGSKFIVKFPSGGEENGLSLG 53
A+REI AEDSI+VVCRFRPLN SEEKAGSKF+VKFP+ EEN +S+
Sbjct: 3 AEREIPAEDSIKVVCRFRPLNDSEEKAGSKFVVKFPNNVEENCISIA 49
>pdb|1MKJ|A Chain A, Human Kinesin Motor Domain With Docked Neck Linker
Length = 349
Score = 42.7 bits (99), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 18/29 (62%), Positives = 22/29 (75%)
Query: 13 AEDSIRVVCRFRPLNHSEEKAGSKFIVKF 41
AE +I+V+CRFRPLN SE G K+I KF
Sbjct: 5 AECNIKVMCRFRPLNESEVNRGDKYIAKF 33
>pdb|1BG2|A Chain A, Human Ubiquitous Kinesin Motor Domain
pdb|2P4N|K Chain K, Human Monomeric Kinesin (1bg2) And Bovine Tubulin (1jff)
Docked Into The 9-Angstrom Cryo-Em Map Of
Nucleotide-Free Kinesin Complexed To The Microtubule
Length = 325
Score = 42.7 bits (99), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 18/29 (62%), Positives = 22/29 (75%)
Query: 13 AEDSIRVVCRFRPLNHSEEKAGSKFIVKF 41
AE +I+V+CRFRPLN SE G K+I KF
Sbjct: 5 AECNIKVMCRFRPLNESEVNRGDKYIAKF 33
>pdb|4ATX|C Chain C, Rigor Kinesin Motor Domain With An Ordered Neck-Linker,
Docked On Tubulin Dimer, Modelled Into The 8a Cryo-Em
Map Of Doublecortin-Microtubules Decorated With Kinesin
Length = 340
Score = 42.4 bits (98), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 39/76 (51%), Gaps = 14/76 (18%)
Query: 13 AEDSIRVVCRFRPLNHSEEKAGSKFIVKFPSGGEENGLSLGIGTA------SESSSEHT- 65
AE +I+V+CRFRPLN SE G K++ KF GE+ + A S +S E
Sbjct: 5 AECNIKVMCRFRPLNESEVNRGDKYVAKFQ--GEDTVMIASKPYAFDRVFQSSTSQEQVY 62
Query: 66 -----KLIGDVITGQN 76
K++ DV+ G N
Sbjct: 63 NDCAKKIVKDVLEGYN 78
>pdb|2KIN|A Chain A, Kinesin (Monomeric) From Rattus Norvegicus
pdb|3KIN|A Chain A, Kinesin (Dimeric) From Rattus Norvegicus
pdb|3KIN|C Chain C, Kinesin (Dimeric) From Rattus Norvegicus
Length = 238
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 22/35 (62%), Positives = 25/35 (71%), Gaps = 2/35 (5%)
Query: 13 AEDSIRVVCRFRPLNHSEEKAGSKFIVKFPSGGEE 47
AE SI+V+CRFRPLN +E G KFI KF GEE
Sbjct: 4 AECSIKVMCRFRPLNEAEILRGDKFIPKF--KGEE 36
>pdb|1GOJ|A Chain A, Structure Of A Fast Kinesin: Implications For Atpase
Mechanism And Interactions With Microtubules
Length = 355
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 21/30 (70%)
Query: 12 AAEDSIRVVCRFRPLNHSEEKAGSKFIVKF 41
++ +SI+VV RFRP N E ++G + IV F
Sbjct: 3 SSANSIKVVARFRPQNRVEIESGGQPIVTF 32
>pdb|3H4S|A Chain A, Structure Of The Complex Of A Mitotic Kinesin With Its
Calcium Binding Regulator
Length = 386
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 10/14 (71%), Positives = 10/14 (71%)
Query: 17 IRVVCRFRPLNHSE 30
IRV CR RPLN E
Sbjct: 15 IRVYCRIRPLNEKE 28
>pdb|2YDT|A Chain A, Structure Of The Alpha-L-Arabinofuranosidase Arb93a From
Fusarium Graminearum In Complexe With An Iminosugar
Inhibitor
Length = 367
Score = 25.8 bits (55), Expect = 7.0, Method: Composition-based stats.
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 27 NHSEEKAGSKFIVKFPSGGEENGLSLGIGTASE 59
N AGS ++V P GG+ + + GT SE
Sbjct: 267 NDGTTPAGSPYVVWTPYGGKNGTIVVSCGTRSE 299
>pdb|2YDP|A Chain A, Structure Of The E242a Mutant Of The
Alpha-L-Arabinofuranosidase Arb93a From Fusarium
Graminearum In Complex With An Iminosugar Inhibitor
pdb|2YDP|B Chain B, Structure Of The E242a Mutant Of The
Alpha-L-Arabinofuranosidase Arb93a From Fusarium
Graminearum In Complex With An Iminosugar Inhibitor
pdb|2YDP|C Chain C, Structure Of The E242a Mutant Of The
Alpha-L-Arabinofuranosidase Arb93a From Fusarium
Graminearum In Complex With An Iminosugar Inhibitor
Length = 367
Score = 25.8 bits (55), Expect = 7.0, Method: Composition-based stats.
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 27 NHSEEKAGSKFIVKFPSGGEENGLSLGIGTASE 59
N AGS ++V P GG+ + + GT SE
Sbjct: 267 NDGTTPAGSPYVVWTPYGGKNGTIVVSCGTRSE 299
>pdb|2W5N|A Chain A, Native Structure Of The Gh93 Alpha-L-Arabinofuranosidase
Of Fusarium Graminearum
Length = 367
Score = 25.8 bits (55), Expect = 7.0, Method: Composition-based stats.
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 27 NHSEEKAGSKFIVKFPSGGEENGLSLGIGTASE 59
N AGS ++V P GG+ + + GT SE
Sbjct: 267 NDGTTPAGSPYVVWTPYGGKNGTIVVSCGTRSE 299
>pdb|2W5O|A Chain A, Complex Structure Of The Gh93 Alpha-L-Arabinofuranosidase
Of Fusarium Graminearum With Arabinobiose
Length = 367
Score = 25.4 bits (54), Expect = 7.3, Method: Composition-based stats.
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 27 NHSEEKAGSKFIVKFPSGGEENGLSLGIGTASE 59
N AGS ++V P GG+ + + GT SE
Sbjct: 267 NDGTTPAGSPYVVWTPYGGKNGTIVVSCGTRSE 299
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
0.309 0.127 0.348
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,527,352
Number of Sequences: 62578
Number of extensions: 87373
Number of successful extensions: 164
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 150
Number of HSP's gapped (non-prelim): 16
length of query: 86
length of database: 14,973,337
effective HSP length: 54
effective length of query: 32
effective length of database: 11,594,125
effective search space: 371012000
effective search space used: 371012000
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 45 (21.9 bits)