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= 031156
(165 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KJ6|A Chain A, Nmr Solution Structure Of A Tubulin Folding Cofactor B
Obtained From Arabidopsis Thaliana: Northeast
Structural Genomics Consortium Target Ar3436a
Length = 97
Score = 140 bits (352), Expect = 5e-34, Method: Compositional matrix adjust.
Identities = 61/83 (73%), Positives = 74/83 (89%)
Query: 14 VLLRVTHSNLKSFSADVRFPLQMSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTD 73
V L +TH+NLKSFSAD RF QMSVE+VK+KLW+KCGTSVNSM+LELYDD+ +KVA L+D
Sbjct: 15 VHLHITHANLKSFSADARFSPQMSVEAVKEKLWKKCGTSVNSMALELYDDSGSKVAVLSD 74
Query: 74 NSRPLGFYSPLQGYRLHVIDLDP 96
+SRPLGF+SP G+RLH+IDLDP
Sbjct: 75 DSRPLGFFSPFDGFRLHIIDLDP 97
>pdb|1T0Y|A Chain A, Solution Structure Of A Ubiquitin-Like Domain From
Tubulin- Binding Cofactor B
Length = 122
Score = 69.3 bits (168), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 40/115 (34%), Positives = 64/115 (55%), Gaps = 6/115 (5%)
Query: 21 SNLKSFSADVRFPLQMSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNSRPLGF 80
+N F + ++P MS+ +K KL GT+V+SM ++L+D + LTD ++ L
Sbjct: 13 TNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKD 72
Query: 81 YSPLQGYRLHVIDLDPSSVTSGGW-LEDTSLVEKYTISEEEYSKRDGTFRKFKEK 134
GYR+H +D VT G +D S+VEKY +S++ Y KR + R +K+K
Sbjct: 73 LGVRDGYRIHAVD-----VTGGNEDFKDESMVEKYEMSDDTYGKRTDSVRAWKKK 122
>pdb|4B6W|A Chain A, Architecture Of Trypanosoma Brucei Tubulin-Binding
Cofactor B
Length = 86
Score = 47.0 bits (110), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 42/84 (50%)
Query: 14 VLLRVTHSNLKSFSADVRFPLQMSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTD 73
V + +THS + + R+ L ++ES+K+ ++ T L+L DD +
Sbjct: 3 VKVSLTHSASRXRVPEKRYGLAQTIESIKENVFTHFATPPEYXQLQLIDDRGITIEKNXA 62
Query: 74 NSRPLGFYSPLQGYRLHVIDLDPS 97
N + LG+Y + +HV+DL PS
Sbjct: 63 NDKQLGYYQCRDEFVIHVVDLQPS 86
>pdb|1V6E|A Chain A, Solution Structure Of A N-Terminal Ubiquitin-Like Domain
In Mouse Tubulin-Specific Chaperone B
Length = 95
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 29/93 (31%), Positives = 46/93 (49%), Gaps = 1/93 (1%)
Query: 10 GDESVLLRVTHSNLKSFSADVRFPLQMSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVA 69
G V++ ++ S+L SF ++ R+ +++ K KL G+ + M LELY + +
Sbjct: 4 GSSGVMVFIS-SSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYS 62
Query: 70 ALTDNSRPLGFYSPLQGYRLHVIDLDPSSVTSG 102
L LG Y G R+HVID S +SG
Sbjct: 63 KLDQEDALLGSYPVDDGCRIHVIDHSGSGPSSG 95
>pdb|2KJR|A Chain A, Solution Nmr Structure Of The N-Terminal Ubiquitin-Like
Domain From Tubulin-Binding Cofactor B, Cg11242, From
Drosophila Melanogaster. Northeast Structural Genomics
Consortium Target Fr629a (Residues 8-92)
Length = 95
Score = 40.0 bits (92), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 44/78 (56%), Gaps = 1/78 (1%)
Query: 16 LRVTHSNLKSFSADVRFPLQMSVESVKDKLWRKCGTSVNSMSLELYDDTNTKVAALTDNS 75
+ V++S+ + + +V+ ++V +K KL G +M ++++ +T V+ + +N
Sbjct: 18 VNVSNSHNDAVAFEVKLAKDLTVAQLKTKLEILTGGCAGTMKVQVFKG-DTCVSTMDNND 76
Query: 76 RPLGFYSPLQGYRLHVID 93
LG+Y+ G RLHV+D
Sbjct: 77 AQLGYYANSDGLRLHVVD 94
>pdb|3TK1|A Chain A, Crystal Structure Of A Meab And Rv1496 Ortholog From
Mycobacterium Thermoresistible Bound To Gdp
pdb|3TK1|B Chain B, Crystal Structure Of A Meab And Rv1496 Ortholog From
Mycobacterium Thermoresistible Bound To Gdp
Length = 330
Score = 33.9 bits (76), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 78 LGFYSPLQGYRLHVIDLDPSSVTSGG-WLEDTSLVEKYTISEEEYSK 123
LG + QG+R+ V+ +DPSSV SGG L D + + + + + Y +
Sbjct: 76 LGMHLIEQGHRVAVLAVDPSSVRSGGSILGDKTRMARLAVHPDAYVR 122
>pdb|3O0G|D Chain D, Crystal Structure Of Cdk5:p25 In Complex With An Atp
Analogue
pdb|3O0G|E Chain E, Crystal Structure Of Cdk5:p25 In Complex With An Atp
Analogue
Length = 149
Score = 30.0 bits (66), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 12 ESVLLRVTHSNLKSFSADVRFPLQ-MSVESVKDKLWRKCGTSVNSMS 57
++VLL + + ++ +PL+ VES K+ W +C + +N MS
Sbjct: 79 QAVLLTCLYLSYSYMGNEISYPLKPFLVESCKEAFWDRCLSVINLMS 125
>pdb|1H4L|D Chain D, Structure And Regulation Of The Cdk5-P25(Nck5a) Complex
pdb|1H4L|E Chain E, Structure And Regulation Of The Cdk5-P25(Nck5a) Complex
Length = 147
Score = 30.0 bits (66), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 12 ESVLLRVTHSNLKSFSADVRFPLQ-MSVESVKDKLWRKCGTSVNSMS 57
++VLL + + ++ +PL+ VES K+ W +C + +N MS
Sbjct: 77 QAVLLTCLYLSYSYMGNEISYPLKPFLVESCKEAFWDRCLSVINLMS 123
>pdb|1UNG|D Chain D, Structural Mechanism For The Inhibition Of Cdk5-P25 By
Roscovitine, Aloisine And Indirubin.
pdb|1UNG|E Chain E, Structural Mechanism For The Inhibition Of Cdk5-P25 By
Roscovitine, Aloisine And Indirubin.
pdb|1UNH|D Chain D, Structural Mechanism For The Inhibition Of Cdk5-P25 By
Roscovitine, Aloisine And Indirubin.
pdb|1UNH|E Chain E, Structural Mechanism For The Inhibition Of Cdk5-P25 By
Roscovitine, Aloisine And Indirubin.
pdb|1UNL|D Chain D, Structural Mechanism For The Inhibition Of Cd5-P25 From
The Roscovitine, Aloisine And Indirubin.
pdb|1UNL|E Chain E, Structural Mechanism For The Inhibition Of Cd5-P25 From
The Roscovitine, Aloisine And Indirubin
Length = 208
Score = 29.6 bits (65), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 12 ESVLLRVTHSNLKSFSADVRFPLQ-MSVESVKDKLWRKCGTSVNSMS 57
++VLL + + ++ +PL+ VES K+ W +C + +N MS
Sbjct: 124 QAVLLTCLYLSYSYMGNEISYPLKPFLVESCKEAFWDRCLSVINLMS 170
>pdb|2WWW|A Chain A, Crystal Structure Of Methylmalonic Acidemia Type A Protein
pdb|2WWW|B Chain B, Crystal Structure Of Methylmalonic Acidemia Type A Protein
pdb|2WWW|C Chain C, Crystal Structure Of Methylmalonic Acidemia Type A Protein
pdb|2WWW|D Chain D, Crystal Structure Of Methylmalonic Acidemia Type A Protein
Length = 349
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 17/21 (80%)
Query: 85 QGYRLHVIDLDPSSVTSGGWL 105
+G++L V+ +DPSS TSGG L
Sbjct: 101 RGHKLSVLAVDPSSCTSGGSL 121
>pdb|2VZF|A Chain A, Crystal Structures Of Nadh:fmn Oxidoreductase (Emob)-Apo
Form
pdb|2VZH|A Chain A, Structures Of Nadh:fmn Oxidoreductase (Emob)-Fmn Complex
pdb|2VZJ|A Chain A, Crystal Structures Of Nadh:fmn Oxidoreductase (Emob)-Fmn,
Nadh Complex
Length = 197
Score = 27.3 bits (59), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 85 QGYRLHVIDLDPSSVTSG 102
QG +HVIDLDP ++ G
Sbjct: 36 QGRHIHVIDLDPKALLRG 53
>pdb|2WHX|A Chain A, A Second Conformation Of The Ns3 Protease-Helicase From
Dengue Virus
Length = 618
Score = 26.2 bits (56), Expect = 9.6, Method: Composition-based stats.
Identities = 19/87 (21%), Positives = 40/87 (45%)
Query: 60 LYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVIDLDPSSVTSGGWLEDTSLVEKYTISEE 119
L+ ++ A+T + +P SP+ + VI L + V + +++ + I E
Sbjct: 115 LFKTLTGEIGAVTLDFKPGTSGSPIINKKGKVIGLYGNGVVTKSGDYVSAITQAERIGEP 174
Query: 120 EYSKRDGTFRKFKEKVLSQNPSAVENK 146
+Y + FRK + ++ +P A + K
Sbjct: 175 DYEVDEDIFRKKRLTIMDLHPGAGKTK 201
>pdb|2VBC|A Chain A, Crystal Structure Of The Ns3 Protease-Helicase From Dengue
Virus
Length = 618
Score = 26.2 bits (56), Expect = 9.6, Method: Composition-based stats.
Identities = 19/87 (21%), Positives = 40/87 (45%)
Query: 60 LYDDTNTKVAALTDNSRPLGFYSPLQGYRLHVIDLDPSSVTSGGWLEDTSLVEKYTISEE 119
L+ ++ A+T + +P SP+ + VI L + V + +++ + I E
Sbjct: 115 LFKTLTGEIGAVTLDFKPGTSGSPIINKKGKVIGLYGNGVVTKSGDYVSAITQAERIGEP 174
Query: 120 EYSKRDGTFRKFKEKVLSQNPSAVENK 146
+Y + FRK + ++ +P A + K
Sbjct: 175 DYEVDEDIFRKKRLTIMDLHPGAGKTK 201
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
0.311 0.127 0.356
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,611,050
Number of Sequences: 62578
Number of extensions: 175776
Number of successful extensions: 297
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 284
Number of HSP's gapped (non-prelim): 17
length of query: 165
length of database: 14,973,337
effective HSP length: 91
effective length of query: 74
effective length of database: 9,278,739
effective search space: 686626686
effective search space used: 686626686
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 47 (22.7 bits)