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= 045120
(374 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4EDP|A Chain A, 1.85 Angstrom Resolution Crystal Structure Of An Abc
Transporter From Clostridium Perfringens Atcc 13124
pdb|4EDP|B Chain B, 1.85 Angstrom Resolution Crystal Structure Of An Abc
Transporter From Clostridium Perfringens Atcc 13124
Length = 351
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 24/39 (61%)
Query: 140 NANGGIGKTTLAKEFAKQAREDKLFDRVVFSEVSQTSDI 178
N N I T LA+ FA+Q E +FD++ +S++ S++
Sbjct: 82 NPNSQIDITYLAESFAEQGVEAGIFDKLDYSKIPNASEM 120
>pdb|1RKB|A Chain A, The Structure Of Adrenal Gland Protein Ad-004
Length = 173
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 21/41 (51%), Gaps = 11/41 (26%)
Query: 136 NALTNANGGIGKTTLAKEFAKQ-----------AREDKLFD 165
N L G+GKTTL KE A + ARE++L+D
Sbjct: 6 NILLTGTPGVGKTTLGKELASKSGLKYINVGDLAREEQLYD 46
>pdb|3IIJ|A Chain A, The Structure Of Hcinap-Adp Complex At 1.76 Angstroms
Resolution.
pdb|3IIK|A Chain A, The Structure Of Hcinap-So4 Complex At 1.95 Angstroms
Resolution
pdb|3IIL|A Chain A, The Structure Of Hcinap-Mgadp-Pi Complex At 2.0 Angstroms
Resolution
pdb|3IIM|A Chain A, The Structure Of Hcinap-Dadp Complex At 2.0 Angstroms
Resolution
Length = 180
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 21/41 (51%), Gaps = 11/41 (26%)
Query: 136 NALTNANGGIGKTTLAKEFAKQ-----------AREDKLFD 165
N L G+GKTTL KE A + ARE++L+D
Sbjct: 13 NILLTGTPGVGKTTLGKELASKSGLKYINVGDLAREEQLYD 53
>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex
With Gtpgammas
pdb|1OIX|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex
With Gdp And Pi
Length = 191
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 42/155 (27%), Positives = 64/155 (41%), Gaps = 13/155 (8%)
Query: 141 ANGGIGKTTLAKEFAKQA--REDKLFDRVVFSEVSQTSDIKKIQGDIAEKLGLELSEEAE 198
+ G+GK+ L F + E K V F+ S D K I+ I + GLE
Sbjct: 36 GDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLE-----R 90
Query: 199 YRRASRLYERLKNENKILVILANIWKLLDLETVK--IPFRNDSRDNNVVLLSMGSKDNFL 256
YR + Y R +LV +I K L E V+ + D D+N+V++ +G+K +
Sbjct: 91 YRAITSAYYR-GAVGALLVY--DIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLR 147
Query: 257 IANITEEEAWRLFKIMNG-DDVENCKFKSTAINVA 290
+ R F NG +E ST + A
Sbjct: 148 HLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAA 182
>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3
pdb|2HV8|B Chain B, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3
pdb|2HV8|C Chain C, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3
Length = 172
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 42/155 (27%), Positives = 64/155 (41%), Gaps = 13/155 (8%)
Query: 141 ANGGIGKTTLAKEFAKQA--REDKLFDRVVFSEVSQTSDIKKIQGDIAEKLGLELSEEAE 198
+ G+GK+ L F + E K V F+ S D K I+ I + GLE
Sbjct: 15 GDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLE-----R 69
Query: 199 YRRASRLYERLKNENKILVILANIWKLLDLETVK--IPFRNDSRDNNVVLLSMGSKDNFL 256
YR + Y R +LV +I K L E V+ + D D+N+V++ +G+K +
Sbjct: 70 YRAITSAYYR-GAVGALLVY--DIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLR 126
Query: 257 IANITEEEAWRLFKIMNG-DDVENCKFKSTAINVA 290
+ R F NG +E ST + A
Sbjct: 127 HLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAA 161
>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab-
Binding Domain
pdb|2D7C|B Chain B, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab-
Binding Domain
Length = 167
Score = 28.1 bits (61), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 42/155 (27%), Positives = 63/155 (40%), Gaps = 13/155 (8%)
Query: 141 ANGGIGKTTLAKEFAKQA--REDKLFDRVVFSEVSQTSDIKKIQGDIAEKLGLELSEEAE 198
+ G+GK+ L F + E K V F+ S D K I+ I + GLE
Sbjct: 12 GDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLE-----R 66
Query: 199 YRRASRLYERLKNENKILVILANIWKLLDLETVK--IPFRNDSRDNNVVLLSMGSKDNFL 256
YR + Y R +LV +I K L E V+ + D D+N+V+ +G+K +
Sbjct: 67 YRAITSAYYR-GAVGALLVY--DIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDLR 123
Query: 257 IANITEEEAWRLFKIMNG-DDVENCKFKSTAINVA 290
+ R F NG +E ST + A
Sbjct: 124 HLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAA 158
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 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,905,649
Number of Sequences: 62578
Number of extensions: 320233
Number of successful extensions: 1180
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1169
Number of HSP's gapped (non-prelim): 23
length of query: 374
length of database: 14,973,337
effective HSP length: 100
effective length of query: 274
effective length of database: 8,715,537
effective search space: 2388057138
effective search space used: 2388057138
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: 52 (24.6 bits)