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= 040965
(311 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2FO7|A Chain A, Crystal Structure Of An 8 Repeat Consensus Tpr
Superhelix (Trigonal Crystal Form)
pdb|2HYZ|A Chain A, Crystal Structure Of An 8 Repeat Consensus Tpr
Superhelix (Orthorombic Crystal Form)
Length = 136
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 3 DGYVKNGDMDSAILLFENMLK---RDVVSWTSIINGFVRNGCFGEAICVFKNMM 53
+ Y K GD D AI ++ L+ R +W ++ N + + G + EAI ++ +
Sbjct: 9 NAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKAL 62
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 3 DGYVKNGDMDSAILLFENMLK---RDVVSWTSIINGFVRNGCFGEAICVFKNMM 53
+ Y K GD D AI ++ L+ R +W ++ N + + G + EAI ++ +
Sbjct: 43 NAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKAL 96
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 3 DGYVKNGDMDSAILLFENMLK---RDVVSWTSIINGFVRNGCFGEAICVFKNMM 53
+ Y K GD D AI ++ L+ R +W ++ N + + G + EAI ++ +
Sbjct: 77 NAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKAL 130
>pdb|1NA0|A Chain A, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
pdb|1NA0|B Chain B, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
Length = 125
Score = 36.2 bits (82), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 7/63 (11%)
Query: 5 YVKNGDMDSAILLFENMLKRD---VVSWTSIINGFVRNGCFGEAICVFKNMMGNVNLVRP 61
Y K GD D AI ++ L+ D +W ++ N + + G + EAI ++ + + P
Sbjct: 19 YYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKAL----ELDP 74
Query: 62 NEA 64
N A
Sbjct: 75 NNA 77
Score = 36.2 bits (82), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 7/63 (11%)
Query: 5 YVKNGDMDSAILLFENMLKRD---VVSWTSIINGFVRNGCFGEAICVFKNMMGNVNLVRP 61
Y K GD D AI ++ L+ D +W ++ N + + G + EAI ++ + + P
Sbjct: 53 YYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKAL----ELDP 108
Query: 62 NEA 64
N A
Sbjct: 109 NNA 111
>pdb|2WQH|A Chain A, Crystal Structure Of Ctpr3y3
Length = 125
Score = 35.4 bits (80), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 27/51 (52%), Gaps = 3/51 (5%)
Query: 3 DGYVKNGDMDSAILLFENMLK---RDVVSWTSIINGFVRNGCFGEAICVFK 50
+ Y K GD D AI ++ L+ + +W ++ N + + G + EAI ++
Sbjct: 17 NAYYKQGDYDEAIEYYQKALELYPNNAEAWYNLGNAYYKQGDYDEAIEYYQ 67
Score = 35.4 bits (80), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 27/51 (52%), Gaps = 3/51 (5%)
Query: 3 DGYVKNGDMDSAILLFENMLK---RDVVSWTSIINGFVRNGCFGEAICVFK 50
+ Y K GD D AI ++ L+ + +W ++ N + + G + EAI ++
Sbjct: 51 NAYYKQGDYDEAIEYYQKALELYPNNAEAWYNLGNAYYKQGDYDEAIEYYQ 101
>pdb|2AVP|A Chain A, Crystal Structure Of An 8 Repeat Consensus Tpr
Superhelix
Length = 70
Score = 31.6 bits (70), Expect = 0.55, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 3 DGYVKNGDMDSAILLFENMLK---RDVVSWTSIINGFVRNGCFGEAICVFKNMM 53
+ Y K GD D AI ++ L+ R +W ++ N + + G + EAI ++ +
Sbjct: 11 NAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKAL 64
>pdb|1NA3|A Chain A, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
pdb|1NA3|B Chain B, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
Length = 91
Score = 30.8 bits (68), Expect = 0.88, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 3 DGYVKNGDMDSAILLFENMLKRD---VVSWTSIINGFVRNGCFGEAICVFKNMM 53
+ Y K GD D AI ++ L+ D +W ++ N + + G + EAI ++ +
Sbjct: 17 NAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKAL 70
>pdb|1W3B|A Chain A, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
Reveals Structural Similarities To Importin Alpha.
pdb|1W3B|B Chain B, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
Reveals Structural Similarities To Importin Alpha
Length = 388
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 3/55 (5%)
Query: 225 FMRSMPFEPDASVLGALLGACKIH--GAVDLCHEVGRRLLELQPKHCGRYVVLSN 277
++R++ P+ +V+ L AC + G +DL + RR +ELQP Y L+N
Sbjct: 226 YLRALSLSPNHAVVHGNL-ACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLAN 279
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
0.324 0.139 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,575,239
Number of Sequences: 62578
Number of extensions: 327545
Number of successful extensions: 782
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 772
Number of HSP's gapped (non-prelim): 17
length of query: 311
length of database: 14,973,337
effective HSP length: 99
effective length of query: 212
effective length of database: 8,778,115
effective search space: 1860960380
effective search space used: 1860960380
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (24.3 bits)