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= 003266
(835 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1US3|A Chain A, Native Xylanase10c From Cellvibrio Japonicus
Length = 530
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 29/140 (20%), Positives = 56/140 (40%), Gaps = 26/140 (18%)
Query: 687 QSAFHLPTF----SAYPQTYVTSVGEYLLTLPQQLEPLAEGISTS------DNNDEAQFF 736
S + +P F + + ++ ++ ++ T+ E +S D+N A F
Sbjct: 253 HSDYQVPNFMKNWAGSAEDFLAALDTHITTIVDHYEAKGNLVSWDVVNEAIDDNSPANFR 312
Query: 737 ATEWMFKVAEGASALYMEQLRGIQ-----------YITDHGAQQLSVDIEYLSNVLS--- 782
T+ F V G S++Y+E R Q Y D+ +Q + + +++
Sbjct: 313 TTDSAFYVKSGNSSVYIE--RAFQTARAADPAVILYYNDYNIEQNNAKTTKMVDMVKDFQ 370
Query: 783 ALSVPIPPALATFHTCLSTP 802
A S+PI H C++ P
Sbjct: 371 ARSIPIDGVGFQMHVCMNYP 390
>pdb|1US2|A Chain A, Xylanase10c (Mutant E385a) From Cellvibrio Japonicus In
Complex With Xylopentaose
Length = 530
Score = 31.2 bits (69), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 29/140 (20%), Positives = 56/140 (40%), Gaps = 26/140 (18%)
Query: 687 QSAFHLPTF----SAYPQTYVTSVGEYLLTLPQQLEPLAEGISTS------DNNDEAQFF 736
S + +P F + + ++ ++ ++ T+ E +S D+N A F
Sbjct: 253 HSDYQVPNFMKNWAGSAEDFLAALDTHITTIVDHYEAKGNLVSWDVVNAAIDDNSPANFR 312
Query: 737 ATEWMFKVAEGASALYMEQLRGIQ-----------YITDHGAQQLSVDIEYLSNVLS--- 782
T+ F V G S++Y+E R Q Y D+ +Q + + +++
Sbjct: 313 TTDSAFYVKSGNSSVYIE--RAFQTARAADPAVILYYNDYNIEQNNAKTTKMVDMVKDFQ 370
Query: 783 ALSVPIPPALATFHTCLSTP 802
A S+PI H C++ P
Sbjct: 371 ARSIPIDGVGFQMHVCMNYP 390
>pdb|2GQ0|A Chain A, Crystal Structure Of The Middle Domain Of Htpg, The E.
Coli Hsp90
pdb|2GQ0|B Chain B, Crystal Structure Of The Middle Domain Of Htpg, The E.
Coli Hsp90
Length = 303
Score = 30.4 bits (67), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 34/133 (25%), Positives = 59/133 (44%), Gaps = 18/133 (13%)
Query: 332 FVPETKALSKGILDILSGDMPKGIKLQTKHLEALIDLHNMTGTFARNIQHLFSESDLQVL 391
F+P +G++D S D+P + E L D T RN+++ ++ LQ+L
Sbjct: 85 FMPNYLRFVRGLID--SSDLPLNVSR-----EILQD-----STVTRNLRNALTKRVLQML 132
Query: 392 LDTLKAVYFPYDTFKQRYGQMERAILSSEIAGVD-----LRGAVTR-GIGAQGIELSETV 445
K Y TF Q++G + + + + A + LR A T AQ + L + V
Sbjct: 133 EKLAKDDAEKYQTFWQQFGLVLKEGPAEDFANQEAIAKLLRFASTHTDSSAQTVSLEDYV 192
Query: 446 RRMEESIPQVIVL 458
RM+E ++ +
Sbjct: 193 SRMKEGQEKIYYI 205
>pdb|3F7F|A Chain A, Structure Of Nup120
pdb|3F7F|B Chain B, Structure Of Nup120
pdb|3F7F|C Chain C, Structure Of Nup120
pdb|3F7F|D Chain D, Structure Of Nup120
Length = 729
Score = 30.4 bits (67), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 15/65 (23%), Positives = 34/65 (52%), Gaps = 10/65 (15%)
Query: 337 KALSKGILDILSGDMPKGIKLQTKHLEALIDLHNMTGTFARNIQHLFSESDLQVLLDTLK 396
+++SK LDI++G++P +++ + T F +++ F ++L++L D L
Sbjct: 526 RSISKKFLDIITGELP----------DSMTTVEKFTDIFKNCLENQFEITNLKILFDELN 575
Query: 397 AVYFP 401
+ P
Sbjct: 576 SFDIP 580
>pdb|3H7N|A Chain A, Structure Of Nup120
pdb|3H7N|B Chain B, Structure Of Nup120
pdb|3H7N|C Chain C, Structure Of Nup120
pdb|3H7N|D Chain D, Structure Of Nup120
Length = 729
Score = 30.4 bits (67), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 15/65 (23%), Positives = 34/65 (52%), Gaps = 10/65 (15%)
Query: 337 KALSKGILDILSGDMPKGIKLQTKHLEALIDLHNMTGTFARNIQHLFSESDLQVLLDTLK 396
+++SK LDI++G++P +++ + T F +++ F ++L++L D L
Sbjct: 526 RSISKKFLDIITGELP----------DSMTTVEKFTDIFKNCLENQFEITNLKILFDELN 575
Query: 397 AVYFP 401
+ P
Sbjct: 576 SFDIP 580
>pdb|2IOP|A Chain A, Crystal Structure Of Full-Length Htpg, The Escherichia
Coli Hsp90, Bound To Adp
pdb|2IOP|B Chain B, Crystal Structure Of Full-Length Htpg, The Escherichia
Coli Hsp90, Bound To Adp
pdb|2IOP|C Chain C, Crystal Structure Of Full-Length Htpg, The Escherichia
Coli Hsp90, Bound To Adp
pdb|2IOP|D Chain D, Crystal Structure Of Full-Length Htpg, The Escherichia
Coli Hsp90, Bound To Adp
pdb|2IOQ|A Chain A, Crystal Structure Of Full-Length Htpg, The Escherichia
Coli Hsp90
pdb|2IOQ|B Chain B, Crystal Structure Of Full-Length Htpg, The Escherichia
Coli Hsp90
Length = 624
Score = 29.3 bits (64), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 34/133 (25%), Positives = 59/133 (44%), Gaps = 18/133 (13%)
Query: 332 FVPETKALSKGILDILSGDMPKGIKLQTKHLEALIDLHNMTGTFARNIQHLFSESDLQVL 391
F+P +G++D S D+P + E L D T RN+++ ++ LQ+L
Sbjct: 313 FMPNYLRFVRGLID--SSDLPLNVSR-----EILQD-----STVTRNLRNALTKRVLQML 360
Query: 392 LDTLKAVYFPYDTFKQRYGQMERAILSSEIAGVD-----LRGAVTR-GIGAQGIELSETV 445
K Y TF Q++G + + + + A + LR A T AQ + L + V
Sbjct: 361 EKLAKDDAEKYQTFWQQFGLVLKEGPAEDFANQEAIAKLLRFASTHTDSSAQTVSLEDYV 420
Query: 446 RRMEESIPQVIVL 458
RM+E ++ +
Sbjct: 421 SRMKEGQEKIYYI 433
>pdb|3HXR|A Chain A, Nucleoporin Nup120 From S.Cerevisiae (Aa 1-757)
Length = 761
Score = 29.3 bits (64), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 15/65 (23%), Positives = 33/65 (50%), Gaps = 10/65 (15%)
Query: 337 KALSKGILDILSGDMPKGIKLQTKHLEALIDLHNMTGTFARNIQHLFSESDLQVLLDTLK 396
+++SK LDI++G++P ++ + T F +++ F ++L++L D L
Sbjct: 530 RSISKKFLDIITGELP----------DSXTTVEKFTDIFKNCLENQFEITNLKILFDELN 579
Query: 397 AVYFP 401
+ P
Sbjct: 580 SFDIP 584
>pdb|1Y4S|A Chain A, Conformation Rearrangement Of Heat Shock Protein 90 Upon
Adp Binding
pdb|1Y4S|B Chain B, Conformation Rearrangement Of Heat Shock Protein 90 Upon
Adp Binding
pdb|1Y4U|A Chain A, Conformation Rearrangement Of Heat Shock Protein 90 Upon
Adp Binding
pdb|1Y4U|B Chain B, Conformation Rearrangement Of Heat Shock Protein 90 Upon
Adp Binding
Length = 559
Score = 29.3 bits (64), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 34/133 (25%), Positives = 59/133 (44%), Gaps = 18/133 (13%)
Query: 332 FVPETKALSKGILDILSGDMPKGIKLQTKHLEALIDLHNMTGTFARNIQHLFSESDLQVL 391
F+P +G++D S D+P + E L D T RN+++ ++ LQ+L
Sbjct: 313 FMPNYLRFVRGLID--SSDLPLNVSR-----EILQD-----STVTRNLRNALTKRVLQML 360
Query: 392 LDTLKAVYFPYDTFKQRYGQMERAILSSEIAGVD-----LRGAVTR-GIGAQGIELSETV 445
K Y TF Q++G + + + + A + LR A T AQ + L + V
Sbjct: 361 EKLAKDDAEKYQTFWQQFGLVLKEGPAEDFANQEAIAKLLRFASTHTDSSAQTVSLEDYV 420
Query: 446 RRMEESIPQVIVL 458
RM+E ++ +
Sbjct: 421 SRMKEGQEKIYYI 433
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
0.317 0.132 0.369
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,625,298
Number of Sequences: 62578
Number of extensions: 756863
Number of successful extensions: 2285
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 2282
Number of HSP's gapped (non-prelim): 18
length of query: 835
length of database: 14,973,337
effective HSP length: 107
effective length of query: 728
effective length of database: 8,277,491
effective search space: 6026013448
effective search space used: 6026013448
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (26.2 bits)