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= 034110
(103 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SE9|A Chain A, Structure Of At3g01050, A Ubiquitin-Fold Protein From
Arabidopsis Thaliana
Length = 126
Score = 96.3 bits (238), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 44/86 (51%), Positives = 61/86 (70%)
Query: 7 IDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILEN 66
++IKFRL DGSDIGP + A+TV LK+ ++S+WP+ K PK V E+KLIS+GK+LEN
Sbjct: 17 LEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLEN 76
Query: 67 NKTVGQCKIPYGEVPGGVIIMHVVVQ 92
+KTV + P + G V MHV++Q
Sbjct: 77 SKTVKDYRSPVSNLAGAVTTMHVIIQ 102
>pdb|1WGH|A Chain A, Solution Structure Of Mouse Ubiquitin-Like 3 Protein
Length = 116
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/101 (21%), Positives = 49/101 (48%), Gaps = 12/101 (11%)
Query: 5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWP----KGKTIVPKAVTEIKLISS 60
++I+++ L G F +S + + + + +WP + + P ++LI
Sbjct: 15 DMINLRLILVSGK-TKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNI---LRLIYQ 70
Query: 61 GKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTE 101
G+ L N T+G K+P+G+ +MH+V + +L + ++
Sbjct: 71 GRFLHGNVTLGALKLPFGK----TTVMHLVARETLPEPNSQ 107
>pdb|2GOW|A Chain A, Solution Structure Of Bc059385 From Homo Sapiens
Length = 125
Score = 35.8 bits (81), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/101 (21%), Positives = 49/101 (48%), Gaps = 12/101 (11%)
Query: 5 ELIDIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWP----KGKTIVPKAVTEIKLISS 60
++I+++ L G F +S + + + + +WP + + P ++LI
Sbjct: 16 DMINLRLILVSGK-TKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNI---LRLIYQ 71
Query: 61 GKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTE 101
G+ L N T+G K+P+G+ +MH+V + +L + ++
Sbjct: 72 GRFLHGNVTLGALKLPFGK----TTVMHLVARETLPEPNSQ 108
>pdb|3M62|B Chain B, Crystal Structure Of Ufd2 In Complex With The
Ubiquitin-Like (Ubl) Domain Of Rad23
Length = 106
Score = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 32/51 (62%), Gaps = 5/51 (9%)
Query: 53 TEIKLISSGKILENNKTVGQCKIPYGEVPGGVIIMHVVVQPSLAKTKTEDR 103
++IKLI SGK+L+++KTV +C + G+ ++ +V Q KTK +R
Sbjct: 40 SQIKLIYSGKVLQDSKTVSECGLKDGDQ-----VVFMVSQKKSTKTKVTER 85
>pdb|2LXC|A Chain A, Solution Structure Of The Complex Between The Sgt2
Homodimerization Domain And The Get5 Ubl Domain
Length = 81
Score = 28.9 bits (63), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 37/72 (51%), Gaps = 11/72 (15%)
Query: 24 YSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGG 83
+S + T+ +KQ ++S+ ++EIKL+ GK+L +N + K+ P
Sbjct: 20 FSPSDTILQIKQHLISEEKASH------ISEIKLLLKGKVLHDNLFLSDLKV----TPAN 69
Query: 84 VIIMHVVVQPSL 95
I V+++P+L
Sbjct: 70 STIT-VMIKPNL 80
>pdb|2LXA|A Chain A, Solution Structure Of The Get5 Ubiquitin-like Domain
Length = 87
Score = 28.9 bits (63), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 37/72 (51%), Gaps = 11/72 (15%)
Query: 24 YSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKIPYGEVPGG 83
+S + T+ +KQ ++S+ ++EIKL+ GK+L +N + K+ P
Sbjct: 20 FSPSDTILQIKQHLISEEKASH------ISEIKLLLKGKVLHDNLFLSDLKV----TPAN 69
Query: 84 VIIMHVVVQPSL 95
I V+++P+L
Sbjct: 70 STIT-VMIKPNL 80
>pdb|4A20|A Chain A, Crystal Structure Of The Ubl Domain Of Mdy2 (get5) At
1.78a
Length = 98
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 28/52 (53%), Gaps = 6/52 (11%)
Query: 24 YSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKI 75
+S + T+ +KQ ++S+ ++EIKL+ GK+L +N + K+
Sbjct: 38 FSPSDTILQIKQHLISEEKASH------ISEIKLLLKGKVLHDNLFLSDLKV 83
>pdb|4ASW|C Chain C, Structure Of The Complex Between The N-terminal
Dimerisation Domain Of Sgt2 And The Ubl Domain Of Get5
Length = 83
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 28/52 (53%), Gaps = 6/52 (11%)
Query: 24 YSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKI 75
+S + T+ +KQ ++S+ ++EIKL+ GK+L +N + K+
Sbjct: 23 FSPSDTILQIKQHLISEEKASH------ISEIKLLLKGKVLHDNLFLSDLKV 68
>pdb|4GOC|A Chain A, Crystal Structure Of The Get5 Ubiquitin-like Domain
pdb|4GOC|B Chain B, Crystal Structure Of The Get5 Ubiquitin-like Domain
pdb|4GOC|C Chain C, Crystal Structure Of The Get5 Ubiquitin-like Domain
Length = 76
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 28/52 (53%), Gaps = 6/52 (11%)
Query: 24 YSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKILENNKTVGQCKI 75
+S + T+ +KQ ++S+ ++EIKL+ GK+L +N + K+
Sbjct: 20 FSPSDTILQIKQHLISEEKASH------ISEIKLLLKGKVLHDNLFLSDLKV 65
>pdb|3L76|A Chain A, Crystal Structure Of Aspartate Kinase From Synechocystis
pdb|3L76|B Chain B, Crystal Structure Of Aspartate Kinase From Synechocystis
Length = 600
Score = 27.3 bits (59), Expect = 2.1, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 27/56 (48%), Gaps = 9/56 (16%)
Query: 8 DIKFRLYDGSDIGPFRYSSASTVDMLKQRIVSDWPKGKTIVPKAVTEIKLISSGKI 63
DI F + +G +S + + Q ++ DW +V KA+ ++ ++ SG I
Sbjct: 492 DIAFMVAEGD---------SSQAEAILQPLIKDWLDAAIVVNKAIAKVSIVGSGMI 538
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 0.136 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,137,151
Number of Sequences: 62578
Number of extensions: 116867
Number of successful extensions: 230
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 225
Number of HSP's gapped (non-prelim): 10
length of query: 103
length of database: 14,973,337
effective HSP length: 68
effective length of query: 35
effective length of database: 10,718,033
effective search space: 375131155
effective search space used: 375131155
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: 45 (21.9 bits)