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= psy11905
(317 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WM9|A Chain A, Structure Of The Complex Between Dock9 And Cdc42.
pdb|2WMN|A Chain A, Structure Of The Complex Between Dock9 And Cdc42-Gdp.
pdb|2WMO|A Chain A, Structure Of The Complex Between Dock9 And Cdc42
Length = 428
Score = 31.2 bits (69), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 31/59 (52%), Gaps = 14/59 (23%)
Query: 12 KTWLNKLETIHIQRSDMNK----------LIMNYLVTEG-FKEAAEKFQQESGITPSLD 59
KTWL+ + IH++ D+++ L+ YL +G F++ F+ ITP++D
Sbjct: 11 KTWLDSMARIHVKNGDLSEAAMCYVHVTALVAEYLTRKGVFRQGCTAFRV---ITPNID 66
>pdb|2X3M|A Chain A, Crystal Structure Of Hypothetical Protein Orf239 From
Pyrobaculum Spherical Virus
Length = 239
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 21/39 (53%)
Query: 114 ENKIEEALHFAQEQLSESGQSDPDILNELERTMALLAFG 152
E K+E + + L E+ PDI + L R MA LAFG
Sbjct: 87 EKKMEFMYWYTRTYLEEAKDIRPDIADALARGMAGLAFG 125
>pdb|1BC9|A Chain A, Cytohesin-1B2-1 Sec7 Domain, Nmr, Minimized Average
Structure
Length = 200
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 40/138 (28%), Positives = 61/138 (44%), Gaps = 21/138 (15%)
Query: 140 NELERTMALLAFGEPMN-SPFGDLLNQAHRQKVASQLNTAILKMEHHESTSPRLLNLLKI 198
N E L GE +N + GD L R + Q+ A +++ HE T L+ L+
Sbjct: 36 NTCEDIAQFLYKGEGLNKTAIGDYL--GERDEFNIQVLHAFVEL--HEFTDLNLVQALRQ 91
Query: 199 ILWS---QGELDKKKIEYPKMRAFSQ-LCGCHSITGLSFTQSSYLLSLVSSTCNAATGRY 254
LWS GE +KI+ M AF+Q C C++ S T + Y+LS N +
Sbjct: 92 FLWSFRLPGE--AQKIDR-MMEAFAQRYCQCNNGVFQS-TDTCYVLSFAIIMLNTSLHNP 147
Query: 255 SIK--------VALNTAI 264
++K +A+N I
Sbjct: 148 NVKDKPTVERFIAMNRGI 165
>pdb|4A4P|A Chain A, Crystal Structure Of The Sec7 Domain From Human Cytohesin1
pdb|4A4P|B Chain B, Crystal Structure Of The Sec7 Domain From Human Cytohesin1
Length = 192
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 40/138 (28%), Positives = 62/138 (44%), Gaps = 21/138 (15%)
Query: 140 NELERTMALLAFGEPMN-SPFGDLLNQAHRQKVASQLNTAILKMEHHESTSPRLLNLLKI 198
N E L GE +N + GD L + R + Q+ A +++ HE T L+ L+
Sbjct: 36 NTCEDIAQFLYKGEGLNKTAIGDYLGE--RDEFNIQVLHAFVEL--HEFTDLNLVQALRQ 91
Query: 199 ILWS---QGELDKKKIEYPKMRAFSQ-LCGCHSITGLSFTQSSYLLSLVSSTCNAATGRY 254
LWS GE +KI+ M AF+Q C C++ S T + Y+LS N +
Sbjct: 92 FLWSFRLPGE--AQKIDR-MMEAFAQRYCQCNNGVFQS-TDTCYVLSFAIIMLNTSLHNP 147
Query: 255 SIK--------VALNTAI 264
++K +A+N I
Sbjct: 148 NVKDKPTVERFIAMNRGI 165
>pdb|1PYS|B Chain B, Phenylalanyl-Trna Synthetase From Thermus Thermophilus
pdb|1B7Y|B Chain B, Phenylalanyl Trna Synthetase Complexed With
Phenylalaninyl-Adenylate
pdb|1EIY|B Chain B, The Crystal Structure Of Phenylalanyl-Trna Synthetase From
Thermus Thermophilus Complexed With Cognate Trnaphe
pdb|1B70|B Chain B, Phenylalanyl Trna Synthetase Complexed With Phenylalanine
pdb|1JJC|B Chain B, Crystal Structure At 2.6a Resolution Of Phenylalanyl-trna
Synthetase Complexed With Phenylalanyl-adenylate In The
Presence Of Manganese
pdb|2AKW|B Chain B, Crystal Structure Of T.thermophilus Phenylalanyl-trna
Synthetase Complexed With P-cl-phenylalanine
pdb|2ALY|B Chain B, Crystal Structure Of T.Thermophilus Phenylalanyl-Trna
Synthetase Complexed With
5'-O-[n-(L-Tyrosyl)sulphamoyl]adenosine
pdb|2AMC|B Chain B, Crystal Structure Of Phenylalanyl-Trna Synthetase
Complexed With L- Tyrosine
pdb|3HFZ|B Chain B, Crystal Structure Of Thermus Thermophilus
Phenylalanyl-Trna Synthetase Comlexed With M-Tyrosine
pdb|3TEH|B Chain B, Crystal Structure Of Thermus Thermophilus
Phenylalanyl-Trna Synthetase Comlexed With L-Dopa
Length = 785
Score = 27.7 bits (60), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 5/71 (7%)
Query: 64 ENRIMIRDAIQNGRIQEATALVNELY--PELLDNDRYIYFHLQQLHLLELIRENKIEEAL 121
E ++R+A G E+ AL + LY P L + + + FHL+ H +R+ ++EEA+
Sbjct: 709 EVEALVREA--AGPYLESLALFD-LYQGPPLPEGHKSLAFHLRFRHPKRTLRDEEVEEAV 765
Query: 122 HFAQEQLSESG 132
E L G
Sbjct: 766 SRVAEALRARG 776
>pdb|2IY5|B Chain B, Phenylalanyl-Trna Synthetase From Thermus Thermophilus
Complexed With Trna And A Phenylalanyl-Adenylate Analog
Length = 785
Score = 27.7 bits (60), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 5/71 (7%)
Query: 64 ENRIMIRDAIQNGRIQEATALVNELY--PELLDNDRYIYFHLQQLHLLELIRENKIEEAL 121
E ++R+A G E+ AL + LY P L + + + FHL+ H +R+ ++EEA+
Sbjct: 709 EVEALVREA--AGPYLESLALFD-LYQGPPLPEGHKSLAFHLRFRHPKRTLRDEEVEEAV 765
Query: 122 HFAQEQLSESG 132
E L G
Sbjct: 766 SRVAEALRARG 776
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
0.316 0.130 0.364
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,677,917
Number of Sequences: 62578
Number of extensions: 320317
Number of successful extensions: 991
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 986
Number of HSP's gapped (non-prelim): 13
length of query: 317
length of database: 14,973,337
effective HSP length: 99
effective length of query: 218
effective length of database: 8,778,115
effective search space: 1913629070
effective search space used: 1913629070
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)