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= 002758
(884 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3PXI|A Chain A, Structure Of Meca108:clpc
pdb|3PXI|B Chain B, Structure Of Meca108:clpc
pdb|3PXI|C Chain C, Structure Of Meca108:clpc
Length = 758
Score = 60.8 bits (146), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 44/132 (33%), Positives = 64/132 (48%), Gaps = 21/132 (15%)
Query: 509 PRRDIW-FNFTGPDLCGKRKIAIALAEIIYGGKENFICADLCPQDGEMNNPPKFYHQVVG 567
P+R I F F GP GK ++A ALAE I+G +E+ I D+ M H G
Sbjct: 517 PKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEY---MEK-----HSTSG 568
Query: 568 GDSVQFRGKTLADYVAWELLKKPLSVVYLENVDKADVHVQNSLSKAIQTGKLPDSYGREV 627
G + ++ +KP SVV L+ ++KA V N L + ++ G+L DS GR V
Sbjct: 569 G------------QLTEKVRRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTV 616
Query: 628 SVSNAIFVTASS 639
N I + S+
Sbjct: 617 DFRNTILIMTSN 628
>pdb|1QVR|A Chain A, Crystal Structure Analysis Of Clpb
pdb|1QVR|B Chain B, Crystal Structure Analysis Of Clpb
pdb|1QVR|C Chain C, Crystal Structure Analysis Of Clpb
Length = 854
Score = 60.1 bits (144), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 45/169 (26%), Positives = 75/169 (44%), Gaps = 24/169 (14%)
Query: 479 KIDWQDEAISVISQTIAQRRTGHEDHHGASPRRDIW-FNFTGPDLCGKRKIAIALAEIIY 537
++ QDEAI ++ I + R G +D P R I F F GP GK ++A LA ++
Sbjct: 559 RVVGQDEAIRAVADAIRRARAGLKD-----PNRPIGSFLFLGPTGVGKTELAKTLAATLF 613
Query: 538 GGKENFICADLCPQDGE------MNNPPKFYHQVVGGDSVQFRGKTLADYVAWELLKKPL 591
+E I D+ + + PP + GG + + ++P
Sbjct: 614 DTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLTEA------------VRRRPY 661
Query: 592 SVVYLENVDKADVHVQNSLSKAIQTGKLPDSYGREVSVSNAIFVTASSF 640
SV+ + ++KA V N L + + G+L DS+GR V N + + S+
Sbjct: 662 SVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNL 710
>pdb|4FCT|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|B Chain B, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|D Chain D, Crystal Structure Of The C-Terminal Domain Of Clpb
Length = 308
Score = 59.3 bits (142), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 45/170 (26%), Positives = 76/170 (44%), Gaps = 24/170 (14%)
Query: 478 EKIDWQDEAISVISQTIAQRRTGHEDHHGASPRRDIW-FNFTGPDLCGKRKIAIALAEII 536
+++ QDEAI ++ I + R G +D P R I F F GP GK ++A LA +
Sbjct: 14 KRVVGQDEAIRAVADAIRRARAGLKD-----PNRPIGSFLFLGPTGVGKTELAKTLAATL 68
Query: 537 YGGKENFICADLCPQDGE------MNNPPKFYHQVVGGDSVQFRGKTLADYVAWELLKKP 590
+ +E I D+ + + PP + GG + + ++P
Sbjct: 69 FDTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLTE------------AVRRRP 116
Query: 591 LSVVYLENVDKADVHVQNSLSKAIQTGKLPDSYGREVSVSNAIFVTASSF 640
SV+ + ++KA V N L + + G+L DS+GR V N + + S+
Sbjct: 117 YSVILFDAIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNL 166
>pdb|4FCV|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCV|B Chain B, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCV|C Chain C, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|C Chain C, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|F Chain F, Crystal Structure Of The C-Terminal Domain Of Clpb
Length = 311
Score = 58.2 bits (139), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 45/170 (26%), Positives = 75/170 (44%), Gaps = 24/170 (14%)
Query: 478 EKIDWQDEAISVISQTIAQRRTGHEDHHGASPRRDIW-FNFTGPDLCGKRKIAIALAEII 536
+++ QDEAI ++ I + R G +D P R I F F GP GK ++A LA +
Sbjct: 17 KRVVGQDEAIRAVADAIRRARAGLKD-----PNRPIGSFLFLGPTGVGKTELAKTLAATL 71
Query: 537 YGGKENFICADLCPQDGE------MNNPPKFYHQVVGGDSVQFRGKTLADYVAWELLKKP 590
+ +E I D + + PP + GG + + ++P
Sbjct: 72 FDTEEAXIRIDXTEYXEKHAVSRLIGAPPGYVGYEEGGQLTE------------AVRRRP 119
Query: 591 LSVVYLENVDKADVHVQNSLSKAIQTGKLPDSYGREVSVSNAIFVTASSF 640
SV+ + ++KA V N L + + G+L DS+GR V N + + S+
Sbjct: 120 YSVILFDAIEKAHPDVFNILLQXLDDGRLTDSHGRTVDFRNTVIIXTSNL 169
>pdb|1KSF|X Chain X, Crystal Structure Of Clpa, An Hsp100 Chaperone And
Regulator Of Clpap Protease: Structural Basis Of
Differences In Function Of The Two Aaa+ Atpase Domains
pdb|1R6B|X Chain X, High Resolution Crystal Structure Of Clpa
Length = 758
Score = 47.0 bits (110), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 48/183 (26%), Positives = 78/183 (42%), Gaps = 23/183 (12%)
Query: 462 CQFDLSNWKTLFRALTEKIDWQDEAISVISQTIAQRRTG--HEDHHGASPRRDIWFNFTG 519
Q D K L L + QD+AI +++ I R G HE S F F G
Sbjct: 442 SQSDRDTLKNLGDRLKMLVFGQDKAIEALTEAIKMARAGLGHEHKPVGS------FLFAG 495
Query: 520 PDLCGKRKIAIALAEIIYGGKENFICADLCPQDGE---MNNPPKFYHQVVGGDSVQFRGK 576
P GK ++ + L++ + F ++ + + PP + VG D +G
Sbjct: 496 PTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPPGY----VGFD----QGG 547
Query: 577 TLADYVAWELLKKPLSVVYLENVDKADVHVQNSLSKAIQTGKLPDSYGREVSVSNAIFVT 636
L D V +K P +V+ L+ ++KA V N L + + G L D+ GR+ N + V
Sbjct: 548 LLTDAV----IKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVM 603
Query: 637 ASS 639
++
Sbjct: 604 TTN 606
>pdb|1SXJ|C Chain C, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 340
Score = 29.3 bits (64), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 32/148 (21%), Positives = 57/148 (38%), Gaps = 28/148 (18%)
Query: 469 WKTLFRALT-EKIDWQDEAISVISQTIAQRRTGHEDHHGASPRRDIWFNFTGPDLCGKRK 527
W +R T +++ Q+E I+ + + + + + H F GP GK
Sbjct: 15 WVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPH-------------LLFYGPPGTGKTS 61
Query: 528 IAIALAEIIYGGKENFICADLCPQDGEMNNPPKFYHQVVGGDSVQFRGKTLADYVAWELL 587
+ALA IYG + + +L D G D V+ + K A ++
Sbjct: 62 TIVALAREIYGKNYSNMVLELNASDDR------------GIDVVRNQIKDFAS--TRQIF 107
Query: 588 KKPLSVVYLENVDKADVHVQNSLSKAIQ 615
K ++ L+ D QN+L + I+
Sbjct: 108 SKGFKLIILDEADAMTNAAQNALRRVIE 135
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 0.131 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,304,518
Number of Sequences: 62578
Number of extensions: 812900
Number of successful extensions: 1910
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1899
Number of HSP's gapped (non-prelim): 8
length of query: 884
length of database: 14,973,337
effective HSP length: 107
effective length of query: 777
effective length of database: 8,277,491
effective search space: 6431610507
effective search space used: 6431610507
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: 56 (26.2 bits)