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= psy4127
(75 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DUL|A Chain A, Crystal Structure Of Trna G26 Methyltransferase Trm1 In
Apo Form From Pyrococcus Horikoshii
pdb|2EJT|A Chain A, Complex Structure Of Trm1 From Pyrococcus Horikoshii With
S-Adenosyl- L-Methionine
pdb|2EJU|A Chain A, Complex Structure Of Trm1 From Pyrococcus Horikoshii With
S-Adenosyl- L-Homocystein
pdb|2YTZ|A Chain A, Complex Structure Of Trm1 From Pyrococcus Horikoshii With
S- Adenosyl-l-homocystein In The Orthorhombic
Crystal-lattice
pdb|2YTZ|B Chain B, Complex Structure Of Trm1 From Pyrococcus Horikoshii With
S- Adenosyl-l-homocystein In The Orthorhombic
Crystal-lattice
Length = 378
Score = 75.5 bits (184), Expect = 7e-15, Method: Composition-based stats.
Identities = 36/68 (52%), Positives = 43/68 (63%)
Query: 7 RGRHFDAIDLDPFGNPTRFLDAAVSSLRDGGLLLVTCTDMAVLCGNTPETCYVKYNAVSL 66
R R+F IDLDPFG+P FLD A+ S + G+L VT TD A LCG P C KY AV L
Sbjct: 128 RHRYFHFIDLDPFGSPMEFLDTALRSAKRRGILGVTATDGAPLCGAHPRACLRKYLAVPL 187
Query: 67 KTAACHEM 74
+ CHE+
Sbjct: 188 RGELCHEV 195
>pdb|3AXS|A Chain A, Complex Structure Of Trna Methyltransferase Trm1 From
Aquifex Aeolicus With Sinefungin
pdb|3AXT|A Chain A, Complex Structure Of Trna Methyltransferase Trm1 From
Aquifex Aeolicus With S-Adenosyl-L-Methionine
Length = 392
Score = 65.1 bits (157), Expect = 1e-11, Method: Composition-based stats.
Identities = 31/72 (43%), Positives = 43/72 (59%)
Query: 3 LEKIRGRHFDAIDLDPFGNPTRFLDAAVSSLRDGGLLLVTCTDMAVLCGNTPETCYVKYN 62
L K G FD +DLDPFG P F+++ S++ GG+L +T TD A L G P+TC +Y
Sbjct: 118 LRKEWGFGFDYVDLDPFGTPVPFIESVALSMKRGGILSLTATDTAPLSGTYPKTCMRRYM 177
Query: 63 AVSLKTAACHEM 74
A L+ HE+
Sbjct: 178 ARPLRNEFKHEV 189
>pdb|1R28|A Chain A, Crystal Structure Of The B-Cell Lymphoma 6 (Bcl6) Btb
Domain To 2.2 Angstrom
pdb|1R28|B Chain B, Crystal Structure Of The B-Cell Lymphoma 6 (Bcl6) Btb
Domain To 2.2 Angstrom
pdb|1R29|A Chain A, Crystal Structure Of The B-cell Lymphoma 6 (bcl6) Btb
Domain To 1.3 Angstrom
pdb|1R2B|A Chain A, Crystal Structure Of The Bcl6 Btb Domain Complexed With A
Smrt Co-Repressor Peptide
pdb|1R2B|B Chain B, Crystal Structure Of The Bcl6 Btb Domain Complexed With A
Smrt Co-Repressor Peptide
pdb|3BIM|A Chain A, Crystal Structure Of The Bcl6 Btb Domain Dimer In Complex
With The Bcor Bbd Corepressor Peptide
pdb|3BIM|B Chain B, Crystal Structure Of The Bcl6 Btb Domain Dimer In Complex
With The Bcor Bbd Corepressor Peptide
pdb|3BIM|C Chain C, Crystal Structure Of The Bcl6 Btb Domain Dimer In Complex
With The Bcor Bbd Corepressor Peptide
pdb|3BIM|D Chain D, Crystal Structure Of The Bcl6 Btb Domain Dimer In Complex
With The Bcor Bbd Corepressor Peptide
pdb|3BIM|E Chain E, Crystal Structure Of The Bcl6 Btb Domain Dimer In Complex
With The Bcor Bbd Corepressor Peptide
pdb|3BIM|F Chain F, Crystal Structure Of The Bcl6 Btb Domain Dimer In Complex
With The Bcor Bbd Corepressor Peptide
pdb|3BIM|G Chain G, Crystal Structure Of The Bcl6 Btb Domain Dimer In Complex
With The Bcor Bbd Corepressor Peptide
pdb|3BIM|H Chain H, Crystal Structure Of The Bcl6 Btb Domain Dimer In Complex
With The Bcor Bbd Corepressor Peptide
pdb|3LBZ|A Chain A, Crystal Structure Of The Bcl6 Btb Domain Complexed With
The Molecule Inhibitor 79-6
pdb|3LBZ|B Chain B, Crystal Structure Of The Bcl6 Btb Domain Complexed With
The Molecule Inhibitor 79-6
Length = 127
Score = 28.9 bits (63), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 6/55 (10%)
Query: 9 RHFDAIDLDPFGNPTRF---LDAAVSS---LRDGGLLLVTCTDMAVLCGNTPETC 57
R+ I+LDP NP F LD +S LR+G ++ V T M + + +TC
Sbjct: 65 RNLSVINLDPEINPEGFNILLDFMYTSRLNLREGNIMAVMATAMYLQMEHVVDTC 119
>pdb|3PAS|A Chain A, Crystal Structure Of A Tetr Family Transcription
Regulator (Maqu_1417) From Marinobacter Aquaeolei Vt8
At 1.90 A Resolution
pdb|3PAS|B Chain B, Crystal Structure Of A Tetr Family Transcription
Regulator (Maqu_1417) From Marinobacter Aquaeolei Vt8
At 1.90 A Resolution
pdb|3PAS|C Chain C, Crystal Structure Of A Tetr Family Transcription
Regulator (Maqu_1417) From Marinobacter Aquaeolei Vt8
At 1.90 A Resolution
pdb|3PAS|D Chain D, Crystal Structure Of A Tetr Family Transcription
Regulator (Maqu_1417) From Marinobacter Aquaeolei Vt8
At 1.90 A Resolution
Length = 195
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 18/38 (47%)
Query: 25 FLDAAVSSLRDGGLLLVTCTDMAVLCGNTPETCYVKYN 62
FL+A V + D G + +A G +P T Y+ Y
Sbjct: 13 FLEATVREVADHGFSATSVGKIAKAAGLSPATLYIYYE 50
>pdb|4AAY|A Chain A, Crystal Structure Of The Arsenite Oxidase Protein Complex
From Rhizobium Species Strain Nt-26
pdb|4AAY|C Chain C, Crystal Structure Of The Arsenite Oxidase Protein Complex
From Rhizobium Species Strain Nt-26
pdb|4AAY|E Chain E, Crystal Structure Of The Arsenite Oxidase Protein Complex
From Rhizobium Species Strain Nt-26
pdb|4AAY|G Chain G, Crystal Structure Of The Arsenite Oxidase Protein Complex
From Rhizobium Species Strain Nt-26
Length = 845
Score = 26.2 bits (56), Expect = 5.4, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 23/48 (47%), Gaps = 3/48 (6%)
Query: 12 DAIDLDPFGNPTRFLDAAVSSLRDGGLLLVTCTDMAVLCGNTPETCYV 59
DA+ P+G+ ++A V ++ GGL V + G E C+V
Sbjct: 512 DAMSAAPYGDREAMVNAIVDAINQGGLFAVNVDIIPTKIG---EACHV 556
>pdb|3E4U|A Chain A, Crystal Structure Of The Wild-Type Human Bcl6 BtbPOZ
DOMAIN
pdb|3E4U|B Chain B, Crystal Structure Of The Wild-Type Human Bcl6 BtbPOZ
DOMAIN
pdb|3E4U|C Chain C, Crystal Structure Of The Wild-Type Human Bcl6 BtbPOZ
DOMAIN
pdb|3E4U|D Chain D, Crystal Structure Of The Wild-Type Human Bcl6 BtbPOZ
DOMAIN
pdb|3E4U|E Chain E, Crystal Structure Of The Wild-Type Human Bcl6 BtbPOZ
DOMAIN
pdb|3E4U|F Chain F, Crystal Structure Of The Wild-Type Human Bcl6 BtbPOZ
DOMAIN
Length = 130
Score = 25.8 bits (55), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 6/54 (11%)
Query: 10 HFDAIDLDPFGNPTRF---LDAAVSS---LRDGGLLLVTCTDMAVLCGNTPETC 57
+ I+LDP NP F LD +S LR+G ++ V T M + + +TC
Sbjct: 69 NLSVINLDPEINPEGFCILLDFMYTSRLNLREGNIMAVMATAMYLQMEHVVDTC 122
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
0.324 0.138 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,276,490
Number of Sequences: 62578
Number of extensions: 72330
Number of successful extensions: 289
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 286
Number of HSP's gapped (non-prelim): 6
length of query: 75
length of database: 14,973,337
effective HSP length: 44
effective length of query: 31
effective length of database: 12,219,905
effective search space: 378817055
effective search space used: 378817055
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 45 (21.9 bits)