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= psy7979
(186 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 61.2 bits (147), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 26/46 (56%), Positives = 35/46 (76%)
Query: 14 CPSCNIIIHQSHPLQYISFDRTMQDLVYKLVPNLQANEMKREREFY 59
CP C++ +H++ PL I D+T+QD+VYKLVP L NEMKR R+FY
Sbjct: 53 CPICDVQVHKTRPLLNIRSDKTLQDIVYKLVPGLFKNEMKRRRDFY 98
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 60.8 bits (146), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 26/46 (56%), Positives = 35/46 (76%)
Query: 14 CPSCNIIIHQSHPLQYISFDRTMQDLVYKLVPNLQANEMKREREFY 59
CP C++ +H++ PL I D+T+QD+VYKLVP L NEMKR R+FY
Sbjct: 53 CPICDVQVHKTRPLLNIRSDKTLQDIVYKLVPGLFKNEMKRRRDFY 98
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 60.8 bits (146), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 26/46 (56%), Positives = 35/46 (76%)
Query: 14 CPSCNIIIHQSHPLQYISFDRTMQDLVYKLVPNLQANEMKREREFY 59
CP C++ +H++ PL I D+T+QD+VYKLVP L NEMKR R+FY
Sbjct: 49 CPICDVQVHKTRPLLNIRSDKTLQDIVYKLVPGLFKNEMKRRRDFY 94
>pdb|2DJB|A Chain A, Solution Structure Of The Ring Domain Of The Human
Polycomb Group Ring Finger Protein 6
Length = 72
Score = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 11 KNTCPSCNIIIHQSHPLQ 28
N CP CNI++HQ+ PL
Sbjct: 50 SNRCPKCNIVVHQTQPLS 67
>pdb|3H8H|A Chain A, Structure Of The C-Terminal Domain Of Human Rnf2RING1B
Length = 112
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%)
Query: 110 TLKKRFIRLSSQATITHLKKFVALKLLDEK 139
+ + R+I+ S AT+ HL K++A++L E+
Sbjct: 24 SAQTRYIKTSGNATVDHLSKYLAVRLALEE 53
>pdb|3GS2|A Chain A, Ring1b C-Terminal DomainCBX7 CBOX COMPLEX
pdb|3GS2|C Chain C, Ring1b C-Terminal DomainCBX7 CBOX COMPLEX
pdb|3IXS|A Chain A, Ring1b C-Terminal DomainRYBP C-Terminal Domain Complex
pdb|3IXS|C Chain C, Ring1b C-Terminal DomainRYBP C-Terminal Domain Complex
pdb|3IXS|E Chain E, Ring1b C-Terminal DomainRYBP C-Terminal Domain Complex
pdb|3IXS|G Chain G, Ring1b C-Terminal DomainRYBP C-Terminal Domain Complex
pdb|3IXS|I Chain I, Ring1b C-Terminal DomainRYBP C-Terminal Domain Complex
pdb|3IXS|K Chain K, Ring1b C-Terminal DomainRYBP C-Terminal Domain Complex
Length = 111
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%)
Query: 110 TLKKRFIRLSSQATITHLKKFVALKLLDEK 139
+ + R+I+ S AT+ HL K++A++L E+
Sbjct: 20 SAQTRYIKTSGNATVDHLSKYLAVRLALEE 49
>pdb|1KOH|A Chain A, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOH|B Chain B, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOH|C Chain C, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOH|D Chain D, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
Length = 277
Score = 27.7 bits (60), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 46 NLQANEMKREREFYRIRGL 64
NL NE+K ERE +I+GL
Sbjct: 202 NLSGNELKSERELDKIKGL 220
>pdb|1FT8|A Chain A, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
pdb|1FT8|B Chain B, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
pdb|1FT8|C Chain C, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
pdb|1FT8|D Chain D, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
pdb|1FT8|E Chain E, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
Length = 271
Score = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 46 NLQANEMKREREFYRIRGL 64
NL NE+K ERE +I+GL
Sbjct: 196 NLSGNELKSERELDKIKGL 214
>pdb|1FO1|A Chain A, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
pdb|1FO1|B Chain B, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
Length = 271
Score = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 46 NLQANEMKREREFYRIRGL 64
NL NE+K ERE +I+GL
Sbjct: 196 NLSGNELKSERELDKIKGL 214
>pdb|1KOO|A Chain A, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOO|B Chain B, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOO|C Chain C, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOO|D Chain D, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
Length = 277
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 46 NLQANEMKREREFYRIRGL 64
NL NE+K ERE +I+GL
Sbjct: 202 NLSGNELKSERELDKIKGL 220
>pdb|3RW6|A Chain A, Structure Of Nuclear Rna Export Factor Tap Bound To Cte
Rna
pdb|3RW6|B Chain B, Structure Of Nuclear Rna Export Factor Tap Bound To Cte
Rna
pdb|3RW7|A Chain A, Structure Of N-Terminal Domain Of Nuclear Rna Export
Factor Tap
pdb|3RW7|B Chain B, Structure Of N-Terminal Domain Of Nuclear Rna Export
Factor Tap
pdb|3RW7|C Chain C, Structure Of N-Terminal Domain Of Nuclear Rna Export
Factor Tap
pdb|3RW7|D Chain D, Structure Of N-Terminal Domain Of Nuclear Rna Export
Factor Tap
Length = 267
Score = 27.3 bits (59), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 46 NLQANEMKREREFYRIRGL 64
NL NE+K ERE +I+GL
Sbjct: 202 NLSGNELKSERELDKIKGL 220
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
0.323 0.138 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,969,293
Number of Sequences: 62578
Number of extensions: 173014
Number of successful extensions: 372
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 360
Number of HSP's gapped (non-prelim): 15
length of query: 186
length of database: 14,973,337
effective HSP length: 93
effective length of query: 93
effective length of database: 9,153,583
effective search space: 851283219
effective search space used: 851283219
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)