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= psy5872
(91 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WGH|A Chain A, Solution Structure Of Mouse Ubiquitin-Like 3 Protein
Length = 116
Score = 151 bits (382), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 72/91 (79%), Positives = 78/91 (85%)
Query: 1 INLRLILVSGKTKEFLFSPSDSAGDIAQHVFDNWPEDWSDEAVAKADILRLIYQGRFLHS 60
INLRLILVSGKTKEFLFSP+DSA DIA+HV+DNWP DW +E V+ +ILRLIYQGRFLH
Sbjct: 17 INLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHG 76
Query: 61 NVTLGALGLTCSKTTVMHLVPRENLPEPNSQ 91
NVTLGAL L KTTVMHLV RE LPEPNSQ
Sbjct: 77 NVTLGALKLPFGKTTVMHLVARETLPEPNSQ 107
>pdb|2GOW|A Chain A, Solution Structure Of Bc059385 From Homo Sapiens
Length = 125
Score = 151 bits (381), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 72/91 (79%), Positives = 78/91 (85%)
Query: 1 INLRLILVSGKTKEFLFSPSDSAGDIAQHVFDNWPEDWSDEAVAKADILRLIYQGRFLHS 60
INLRLILVSGKTKEFLFSP+DSA DIA+HV+DNWP DW +E V+ +ILRLIYQGRFLH
Sbjct: 18 INLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHG 77
Query: 61 NVTLGALGLTCSKTTVMHLVPRENLPEPNSQ 91
NVTLGAL L KTTVMHLV RE LPEPNSQ
Sbjct: 78 NVTLGALKLPFGKTTVMHLVARETLPEPNSQ 108
>pdb|2LXC|A Chain A, Solution Structure Of The Complex Between The Sgt2
Homodimerization Domain And The Get5 Ubl Domain
Length = 81
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 33/60 (55%), Gaps = 7/60 (11%)
Query: 17 FSPSDSAGDIAQHVFDNWPEDWSDEAVAKADILRLIYQGRFLHSNVTLGALGLTCSKTTV 76
FSPSD+ I QH+ S+E + ++L+ +G+ LH N+ L L +T + +T+
Sbjct: 20 FSPSDTILQIKQHLI-------SEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTI 72
>pdb|2LXA|A Chain A, Solution Structure Of The Get5 Ubiquitin-like Domain
Length = 87
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 33/60 (55%), Gaps = 7/60 (11%)
Query: 17 FSPSDSAGDIAQHVFDNWPEDWSDEAVAKADILRLIYQGRFLHSNVTLGALGLTCSKTTV 76
FSPSD+ I QH+ S+E + ++L+ +G+ LH N+ L L +T + +T+
Sbjct: 20 FSPSDTILQIKQHLI-------SEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTI 72
>pdb|4A20|A Chain A, Crystal Structure Of The Ubl Domain Of Mdy2 (get5) At
1.78a
Length = 98
Score = 36.6 bits (83), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 33/60 (55%), Gaps = 7/60 (11%)
Query: 17 FSPSDSAGDIAQHVFDNWPEDWSDEAVAKADILRLIYQGRFLHSNVTLGALGLTCSKTTV 76
FSPSD+ I QH+ S+E + ++L+ +G+ LH N+ L L +T + +T+
Sbjct: 38 FSPSDTILQIKQHLI-------SEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTI 90
>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 = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 33/60 (55%), Gaps = 7/60 (11%)
Query: 17 FSPSDSAGDIAQHVFDNWPEDWSDEAVAKADILRLIYQGRFLHSNVTLGALGLTCSKTTV 76
FSPSD+ I QH+ S+E + ++L+ +G+ LH N+ L L +T + +T+
Sbjct: 23 FSPSDTILQIKQHLI-------SEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTI 75
>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 = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 33/60 (55%), Gaps = 7/60 (11%)
Query: 17 FSPSDSAGDIAQHVFDNWPEDWSDEAVAKADILRLIYQGRFLHSNVTLGALGLTCSKTTV 76
FSPSD+ I QH+ S+E + ++L+ +G+ LH N+ L L +T + +T+
Sbjct: 20 FSPSDTILQIKQHLI-------SEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTI 72
>pdb|3H0G|A Chain A, Rna Polymerase Ii From Schizosaccharomyces Pombe
pdb|3H0G|M Chain M, Rna Polymerase Ii From Schizosaccharomyces Pombe
Length = 1752
Score = 28.9 bits (63), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 4/52 (7%)
Query: 3 LRLILVSGKTKEFLFSPSDSAGDIAQH----VFDNWPEDWSDEAVAKADILR 50
LRL L K + S SD AG IA+ +F W ED +D+ + + I+R
Sbjct: 1196 LRLELDRAKMLDKKLSMSDVAGKIAESFERDLFTIWSEDNADKLIIRCRIIR 1247
>pdb|2CRE|A Chain A, Solution Structure Of Rsgi Ruh-036, An Sh3 Domain From
Human Cdna
Length = 71
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 25/36 (69%), Gaps = 2/36 (5%)
Query: 20 SDSAGDIAQHVFDNWPEDWSDE-AVAKADILRLIYQ 54
S S+G +A+ ++DN P D SDE A ++ DIL ++ Q
Sbjct: 3 SGSSGLLARALYDNCP-DCSDELAFSRGDILTILEQ 37
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
0.318 0.135 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,775,781
Number of Sequences: 62578
Number of extensions: 98822
Number of successful extensions: 185
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 177
Number of HSP's gapped (non-prelim): 9
length of query: 91
length of database: 14,973,337
effective HSP length: 58
effective length of query: 33
effective length of database: 11,343,813
effective search space: 374345829
effective search space used: 374345829
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: 45 (21.9 bits)