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= 007775
(590 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 34/97 (35%), Positives = 48/97 (49%), Gaps = 5/97 (5%)
Query: 485 GVLYEKKGLYKEAIKAFRSALNIDPAHVPSLISTAVVLRKLSDQSNAVIRSFLMAALRLD 544
G Y K+G Y EAI+ ++ AL +DP + + + K D A+ + AL LD
Sbjct: 16 GNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAI--EYYQKALELD 73
Query: 545 GMNSSAWYNLGLFYKSQGTQSSKLEAAECFEAAASLE 581
N+ AWYNLG Y QG EA E ++ A L+
Sbjct: 74 PNNAEAWYNLGNAYYKQGDYD---EAIEYYQKALELD 107
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 31/118 (26%), Positives = 47/118 (39%), Gaps = 2/118 (1%)
Query: 445 EVWLDLAFIYINLSQWHDAEICLXXXXXXXXXXXXXCHATGVLYEKKGLYKEAIKAFRSA 504
E W +L Y + +A + G Y K+G Y EAI+ ++ A
Sbjct: 10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKA 69
Query: 505 LNIDPAHVPSLISTAVVLRKLSDQSNAVIRSFLMAALRLDGMNSSAWYNLGLFYKSQG 562
L +DP + + + K D A+ + AL LD N+ A NLG + QG
Sbjct: 70 LELDPNNAEAWYNLGNAYYKQGDYDEAI--EYYQKALELDPNNAEAKQNLGNAKQKQG 125
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 33/80 (41%), Gaps = 5/80 (6%)
Query: 438 HARSLEL-----EVWLDLAFIYINLSQWHDAEICLXXXXXXXXXXXXXCHATGVLYEKKG 492
+ ++LEL E W +L Y + +A + G Y K+G
Sbjct: 32 YQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQG 91
Query: 493 LYKEAIKAFRSALNIDPAHV 512
Y EAI+ ++ AL +DP +
Sbjct: 92 DYDEAIEYYQKALELDPNNA 111
>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 = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 38/137 (27%), Positives = 56/137 (40%), Gaps = 5/137 (3%)
Query: 445 EVWLDLAFIYINLSQWHDAEICLXXXXXXXXXXXXXCHATGVLYEKKGLYKEAIKAFRSA 504
E W +L Y + +A + G Y K+G Y EAI+ ++ A
Sbjct: 2 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKA 61
Query: 505 LNIDPAHVPSLISTAVVLRKLSDQSNAVIRSFLMAALRLDGMNSSAWYNLGLFYKSQGTQ 564
L +DP + + K D A+ + AL LD ++ AWYNLG Y QG
Sbjct: 62 LELDPRSAEAWYNLGNAYYKQGDYDEAI--EYYQKALELDPRSAEAWYNLGNAYYKQGDY 119
Query: 565 SSKLEAAECFEAAASLE 581
EA E ++ A L+
Sbjct: 120 D---EAIEYYQKALELD 133
Score = 30.0 bits (66), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 31/124 (25%), Positives = 51/124 (41%), Gaps = 18/124 (14%)
Query: 401 QGQLKGAVETYTHLLAALQVQTKT----FSSDKRFYK-GSANHA-----RSLEL-----E 445
QG A+E Y AL++ ++ ++ +YK G + A ++LEL E
Sbjct: 14 QGDYDEAIEYYQK---ALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAE 70
Query: 446 VWLDLAFIYINLSQWHDAEICLXXXXXXXXXXXXXCHATGVLYEKKGLYKEAIKAFRSAL 505
W +L Y + +A + G Y K+G Y EAI+ ++ AL
Sbjct: 71 AWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKAL 130
Query: 506 NIDP 509
+DP
Sbjct: 131 ELDP 134
>pdb|3KD7|A Chain A, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|B Chain B, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|C Chain C, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|D Chain D, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|E Chain E, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
Length = 125
Score = 49.3 bits (116), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 41/85 (48%), Gaps = 2/85 (2%)
Query: 485 GVLYEKKGLYKEAIKAFRSALNIDPAHVPSLISTAVVLRKLSDQSNAVIRSFLMAALRLD 544
G Y K+G Y++AI+ ++ AL +DP + + + K D A+ + AL LD
Sbjct: 16 GNAYYKQGDYQKAIEYYQKALELDPNNASAWYNLGNAYYKQGDYQKAI--EYYQKALELD 73
Query: 545 GMNSSAWYNLGLFYKSQGTQSSKLE 569
N+ AWY G Y QG +E
Sbjct: 74 PNNAKAWYRRGNAYYKQGDYQKAIE 98
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 30/118 (25%), Positives = 45/118 (38%), Gaps = 2/118 (1%)
Query: 445 EVWLDLAFIYINLSQWHDAEICLXXXXXXXXXXXXXCHATGVLYEKKGLYKEAIKAFRSA 504
E W +L Y + A + G Y K+G Y++AI+ ++ A
Sbjct: 10 EAWKNLGNAYYKQGDYQKAIEYYQKALELDPNNASAWYNLGNAYYKQGDYQKAIEYYQKA 69
Query: 505 LNIDPAHVPSLISTAVVLRKLSDQSNAVIRSFLMAALRLDGMNSSAWYNLGLFYKSQG 562
L +DP + + K D A+ AL LD N+ A NLG + QG
Sbjct: 70 LELDPNNAKAWYRRGNAYYKQGDYQKAI--EDYQKALELDPNNAKAKQNLGNAKQKQG 125
>pdb|2WQH|A Chain A, Crystal Structure Of Ctpr3y3
Length = 125
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 32/96 (33%), Positives = 45/96 (46%), Gaps = 5/96 (5%)
Query: 485 GVLYEKKGLYKEAIKAFRSALNIDPAHVPSLISTAVVLRKLSDQSNAVIRSFLMAALRLD 544
G Y K+G Y EAI+ ++ AL + P + + + K D A+ + AL L
Sbjct: 16 GNAYYKQGDYDEAIEYYQKALELYPNNAEAWYNLGNAYYKQGDYDEAI--EYYQKALELY 73
Query: 545 GMNSSAWYNLGLFYKSQGTQSSKLEAAECFEAAASL 580
N+ AWYNLG Y QG EA E ++ A L
Sbjct: 74 PNNAEAWYNLGNAYYKQGDYD---EAIEYYQKALEL 106
>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 = 42.7 bits (99), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 38/78 (48%), Gaps = 2/78 (2%)
Query: 485 GVLYEKKGLYKEAIKAFRSALNIDPAHVPSLISTAVVLRKLSDQSNAVIRSFLMAALRLD 544
G Y K+G Y EAI+ ++ AL +DP + + + K D A+ + AL LD
Sbjct: 16 GNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAI--EYYQKALELD 73
Query: 545 GMNSSAWYNLGLFYKSQG 562
N+ A NLG + QG
Sbjct: 74 PNNAEAKQNLGNAKQKQG 91
Score = 35.4 bits (80), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 34/76 (44%), Gaps = 6/76 (7%)
Query: 507 IDPAH-VPSLISTAVVLRKLSDQSNAVIRSFLMAALRLDGMNSSAWYNLGLFYKSQGTQS 565
+DP + + + K D A+ + AL LD N+ AWYNLG Y QG
Sbjct: 3 MDPGNSAEAWYNLGNAYYKQGDYDEAI--EYYQKALELDPNNAEAWYNLGNAYYKQGDYD 60
Query: 566 SKLEAAECFEAAASLE 581
EA E ++ A L+
Sbjct: 61 ---EAIEYYQKALELD 73
>pdb|2AVP|A Chain A, Crystal Structure Of An 8 Repeat Consensus Tpr Superhelix
Length = 70
Score = 35.0 bits (79), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 2/60 (3%)
Query: 485 GVLYEKKGLYKEAIKAFRSALNIDPAHVPSLISTAVVLRKLSDQSNAVIRSFLMAALRLD 544
G Y K+G Y EAI+ ++ AL +DP + + K D A+ + AL LD
Sbjct: 10 GNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAI--EYYQKALELD 67
Score = 32.0 bits (71), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 524 KLSDQSNAVIRSFLMAALRLDGMNSSAWYNLGLFYKSQGTQSSKLEAAECFEAAASLE 581
K D A+ + AL LD ++ AWYNLG Y QG EA E ++ A L+
Sbjct: 15 KQGDYDEAI--EYYQKALELDPRSAEAWYNLGNAYYKQGDYD---EAIEYYQKALELD 67
>pdb|3VTX|A Chain A, Crystal Structure Of Mama Protein
pdb|3VTX|B Chain B, Crystal Structure Of Mama Protein
pdb|3VTY|A Chain A, Crystal Structure Of Mama
pdb|3VTY|B Chain B, Crystal Structure Of Mama
pdb|3VTY|C Chain C, Crystal Structure Of Mama
pdb|3VTY|D Chain D, Crystal Structure Of Mama
Length = 184
Score = 34.7 bits (78), Expect = 0.15, Method: Composition-based stats.
Identities = 31/115 (26%), Positives = 46/115 (40%), Gaps = 34/115 (29%)
Query: 491 KGLYKEAIKAFRSALNIDPAHVPSLISTA-------------------VVLRKLS----- 526
KG + AI+A++ L DP +V +L+ VVL S
Sbjct: 18 KGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTTSAEAYY 77
Query: 527 ---------DQSNAVIRSFLMAALRLDGMNSSAWYNLGLFYKSQGTQSSKLEAAE 572
D+ A I + L A+ L+ + + A+Y LGL Y S G +EA E
Sbjct: 78 ILGSANFMIDEKQAAIDA-LQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYE 131
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
0.319 0.133 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,719,898
Number of Sequences: 62578
Number of extensions: 529425
Number of successful extensions: 1193
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1153
Number of HSP's gapped (non-prelim): 33
length of query: 590
length of database: 14,973,337
effective HSP length: 104
effective length of query: 486
effective length of database: 8,465,225
effective search space: 4114099350
effective search space used: 4114099350
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)