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= 008174
(575 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CR5|A Chain A, Solution Structure Of The Ubx Domain Of D0h8s2298e Protein
Length = 109
Score = 53.1 bits (126), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 44/79 (55%), Gaps = 2/79 (2%)
Query: 486 LPQEPAPDDENAVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYP 545
LP+EP+ E VT+ +R P+G RRF KS Q L D++ + G YRL +P
Sbjct: 12 LPEEPSETAEEVVTVALRCPNGRVLRRRFFKSWNSQVLLDWM-MKVGYHKSLYRLSTSFP 70
Query: 546 RRAFSDGESALTLNELGLT 564
RRA + E +L ++G+T
Sbjct: 71 RRAL-EVEGGSSLEDIGIT 88
>pdb|3QQ8|B Chain B, Crystal Structure Of P97-N In Complex With Faf1-Ubx
pdb|3R3M|B Chain B, Crystal Structure Of The Faf1 Ubx Domain
pdb|3R3M|A Chain A, Crystal Structure Of The Faf1 Ubx Domain
pdb|3R3M|C Chain C, Crystal Structure Of The Faf1 Ubx Domain
pdb|3R3M|D Chain D, Crystal Structure Of The Faf1 Ubx Domain
Length = 85
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 42/74 (56%), Gaps = 2/74 (2%)
Query: 500 LLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLN 559
L +R P G RRFL SNKLQ +FD++ +G Y+L+ +PRR + + +L
Sbjct: 11 LRIRTPSGEFLERRFLASNKLQIVFDFV-ASKGFPWDEYKLLSTFPRRDVTQLDPNKSLL 69
Query: 560 ELGLTSKQEALFLE 573
E+ L QE LFLE
Sbjct: 70 EVKLFP-QETLFLE 82
>pdb|1H8C|A Chain A, Ubx Domain From Human Faf1
Length = 82
Score = 49.7 bits (117), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 42/74 (56%), Gaps = 2/74 (2%)
Query: 500 LLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLN 559
L +R P G RRFL SNKLQ +FD++ +G Y+L+ +PRR + + +L
Sbjct: 8 LRIRTPSGEFLERRFLASNKLQIVFDFV-ASKGFPWDEYKLLSTFPRRDVTQLDPNKSLL 66
Query: 560 ELGLTSKQEALFLE 573
E+ L QE LFLE
Sbjct: 67 EVKLFP-QETLFLE 79
>pdb|3QX1|A Chain A, Crystal Structure Of Faf1 Ubx Domain
pdb|3QX1|B Chain B, Crystal Structure Of Faf1 Ubx Domain
Length = 84
Score = 49.3 bits (116), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 42/74 (56%), Gaps = 2/74 (2%)
Query: 500 LLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLN 559
L +R P G RRFL SNKLQ +FD++ +G Y+L+ +PRR + + +L
Sbjct: 10 LRIRTPSGEFLERRFLASNKLQIVFDFV-ASKGFPWDEYKLLSTFPRRDVTQLDPNKSLL 68
Query: 560 ELGLTSKQEALFLE 573
E+ L QE LFLE
Sbjct: 69 EVKLFP-QETLFLE 81
>pdb|3QCA|A Chain A, Crystal Structure Of Faf1 Ubx Domain In Complex With
P97VCP N DOMAIN Reveals The Conserved Fcisp Touch-Turn
Motif Of Ubx Domain Suffering Conformational Change
pdb|3QCA|B Chain B, Crystal Structure Of Faf1 Ubx Domain In Complex With
P97VCP N DOMAIN Reveals The Conserved Fcisp Touch-Turn
Motif Of Ubx Domain Suffering Conformational Change
pdb|3QCA|C Chain C, Crystal Structure Of Faf1 Ubx Domain In Complex With
P97VCP N DOMAIN Reveals The Conserved Fcisp Touch-Turn
Motif Of Ubx Domain Suffering Conformational Change
pdb|3QCA|D Chain D, Crystal Structure Of Faf1 Ubx Domain In Complex With
P97VCP N DOMAIN Reveals The Conserved Fcisp Touch-Turn
Motif Of Ubx Domain Suffering Conformational Change
pdb|3QC8|B Chain B, Crystal Structure Of Faf1 Ubx Domain In Complex With
P97VCP N DOMAIN Reveals The Conserved Fcisp Touch-Turn
Motif Of Ubx Domain Suffering Conformational Change
Length = 84
Score = 49.3 bits (116), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 42/74 (56%), Gaps = 2/74 (2%)
Query: 500 LLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLN 559
L +R P G RRFL SNKLQ +FD++ +G Y+L+ +PRR + + +L
Sbjct: 10 LRIRTPSGEFLERRFLASNKLQIVFDFV-ASKGFPWDEYKLLSTFPRRDVTQLDPNKSLL 68
Query: 560 ELGLTSKQEALFLE 573
E+ L QE LFLE
Sbjct: 69 EVKLFP-QETLFLE 81
>pdb|3QWZ|B Chain B, Crystal Structure Of Faf1 Ubx-P97n-Domain Complex
Length = 84
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 41/74 (55%), Gaps = 2/74 (2%)
Query: 500 LLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLN 559
L +R P G RRFL SNKLQ +FD++ +G Y L+ +PRR + + +L
Sbjct: 10 LRIRTPSGEFLERRFLASNKLQIVFDFV-ASKGFPWDEYXLLSTFPRRDVTQLDPNKSLL 68
Query: 560 ELGLTSKQEALFLE 573
E+ L QE LFLE
Sbjct: 69 EVKLFP-QETLFLE 81
>pdb|1WJ4|A Chain A, Solution Structure Of The Ubx Domain Of Kiaa0794 Protein
Length = 124
Score = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 38/74 (51%), Gaps = 2/74 (2%)
Query: 500 LLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLN 559
L++R PDG R + KL +L ++ +G + L+ +PRR S + +TL
Sbjct: 46 LMLRYPDGKREQITLPEQAKLLALVKHVQ-SKGYPNERFELLTNFPRRKLSHLDYDITLQ 104
Query: 560 ELGLTSKQEALFLE 573
E GL QE +F++
Sbjct: 105 EAGLCP-QETVFVQ 117
>pdb|3BQ3|A Chain A, Crystal Structure Of S. Cerevisiae Dcn1
Length = 270
Score = 32.3 bits (72), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 25/39 (64%)
Query: 4 PNQEAIDTFISITGATESVAVQKLEEHSGDLNAAVNAHF 42
P QEAI++F S+T V+ + L+ + ++N A+N ++
Sbjct: 14 PEQEAIESFTSLTKCDPKVSRKYLQRNHWNINYALNDYY 52
>pdb|1V92|A Chain A, Solution Structure Of The Uba Domain From P47, A Major
Cofactor Of The Aaa Atpase P97
Length = 46
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 24/45 (53%)
Query: 1 MVRPNQEAIDTFISITGATESVAVQKLEEHSGDLNAAVNAHFSEG 45
M Q+A+ F+++TGA E A LE DL A+ + + +G
Sbjct: 1 MAEERQDALREFVAVTGAEEDRARFFLESAGWDLQIALASFYEDG 45
>pdb|2L4E|A Chain A, Nmr Structure Of The Uba Domain Of S. Cerevisiae Dcn1
pdb|2L4F|A Chain A, Nmr Structure Of The Uba Domain Of S. Cerevisiae Dcn1
Bound To Ubiquitin
Length = 59
Score = 29.6 bits (65), Expect = 4.9, Method: Composition-based stats.
Identities = 13/41 (31%), Positives = 26/41 (63%)
Query: 4 PNQEAIDTFISITGATESVAVQKLEEHSGDLNAAVNAHFSE 44
P QEAI++F S+T V+ + L+ + ++N A+N ++ +
Sbjct: 10 PEQEAIESFTSLTKCDPKVSRKYLQRNHWNINYALNDYYDK 50
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
0.310 0.129 0.363
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,193,853
Number of Sequences: 62578
Number of extensions: 605717
Number of successful extensions: 944
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 935
Number of HSP's gapped (non-prelim): 11
length of query: 575
length of database: 14,973,337
effective HSP length: 104
effective length of query: 471
effective length of database: 8,465,225
effective search space: 3987120975
effective search space used: 3987120975
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 54 (25.4 bits)