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= 046522
(115 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3H7H|A Chain A, Crystal Structure Of The Human Transcription Elongation
Factor Dsif, Hspt4HSPT5 (176-273)
Length = 120
Score = 95.5 bits (236), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 45/108 (41%), Positives = 64/108 (59%), Gaps = 2/108 (1%)
Query: 4 APAQIPTSFGHELRACLRCRLVKTYDQFRESGCENC-PFFKMDEDHERVVDCTTPNFNGI 62
A +P H LRACL C LVKT DQF GC+NC + +M + E V DCT+ +F+GI
Sbjct: 5 ALETVPKDLRH-LRACLLCSLVKTIDQFEYDGCDNCDAYLQMKGNREMVYDCTSSSFDGI 63
Query: 63 ISVMDPTRSWAARWLRIGRFVPGCYTLAVSEALPEDLQNLCEDERVQY 110
I++M P SW ++W R+ F PG Y ++V+ LP+ + + V Y
Sbjct: 64 IAMMSPEDSWVSKWQRVSNFKPGVYAVSVTGRLPQGIVRELKSRGVAY 111
>pdb|2EXU|A Chain A, Crystal Structure Of Saccharomyces Cerevisiae
Transcription Elongation Factors Spt4-Spt5ngn Domain
Length = 200
Score = 71.2 bits (173), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 50/86 (58%), Gaps = 1/86 (1%)
Query: 17 RACLRCRLVKTYDQFRESGCENCPFFKMDEDHERVVDCTTPNFNGIISVMDPTRSWAARW 76
RAC+ C +V+T ++F GC NC +E ++CT+P+F G++ + PT+SW A+W
Sbjct: 5 RACMLCGIVQTTNEFNRDGCPNCQGI-FEEAGVSTMECTSPSFEGLVGMCKPTKSWVAKW 63
Query: 77 LRIGRFVPGCYTLAVSEALPEDLQNL 102
L + + G Y + V LP ++ L
Sbjct: 64 LSVDHSIAGMYAIKVDGRLPAEVVEL 89
>pdb|1OIP|A Chain A, The Molecular Basis Of Vitamin E Retention: Structure Of
Human Alpha-tocopherol Transfer Protein
pdb|1OIZ|A Chain A, The Molecular Basis Of Vitamin E Retention: Structure Of
Human Alpha-Tocopherol Transfer Protein
pdb|1OIZ|B Chain B, The Molecular Basis Of Vitamin E Retention: Structure Of
Human Alpha-Tocopherol Transfer Protein
Length = 278
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 30/69 (43%), Gaps = 5/69 (7%)
Query: 20 LRCRLVKTYDQFRESGCENCPFFKMDEDHERVVDCTTPNFNGIISVMDPTRSWAARWLRI 79
L RL+K Y ++R CP D ++ ++G++ DPT S + RI
Sbjct: 65 LAWRLLKNYYKWRA----ECPEISADLHPRSIIGLLKAGYHGVLRSRDPTGSKVLIY-RI 119
Query: 80 GRFVPGCYT 88
+ P +T
Sbjct: 120 AHWDPKVFT 128
>pdb|1GPL|A Chain A, Rp2 Lipase
Length = 432
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 27 TYDQFRESGCENCP 40
+YD+F+ESGC CP
Sbjct: 271 SYDEFQESGCFPCP 284
>pdb|1R5L|A Chain A, Crystal Structure Of Human Alpha-tocopherol Transfer
Protein Bound To Its Ligand
Length = 262
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 30/69 (43%), Gaps = 5/69 (7%)
Query: 20 LRCRLVKTYDQFRESGCENCPFFKMDEDHERVVDCTTPNFNGIISVMDPTRSWAARWLRI 79
L RL+K Y ++R CP D ++ ++G++ DPT S + RI
Sbjct: 49 LAWRLLKNYYKWRA----ECPEISADLHPRSIIGLLKAGYHGVLRSRDPTGSKVLIY-RI 103
Query: 80 GRFVPGCYT 88
+ P +T
Sbjct: 104 AHWDPKVFT 112
>pdb|2PMZ|A Chain A, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|2PMZ|Q Chain Q, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|3HKZ|A Chain A, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
pdb|3HKZ|I Chain I, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
Length = 880
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 22/48 (45%), Gaps = 2/48 (4%)
Query: 2 GSAPAQIPTSFGH--ELRACLRCRLVKTYDQFRESGCENCPFFKMDED 47
G+ P FGH +R + LVK +F ++ C C K+ ED
Sbjct: 62 GNTLGNCPGHFGHIELVRPVIHVGLVKHIYEFLKATCRRCGRVKISED 109
>pdb|1W52|X Chain X, Crystal Structure Of A Proteolyzed Form Of Pancreatic
Lipase Related Protein 2 From Horse
Length = 452
Score = 26.2 bits (56), Expect = 5.2, Method: Composition-based stats.
Identities = 8/14 (57%), Positives = 12/14 (85%)
Query: 27 TYDQFRESGCENCP 40
+YD+F+E+GC CP
Sbjct: 289 SYDKFQENGCFPCP 302
>pdb|2HNK|A Chain A, Crystal Structure Of Sam-dependent O-methyltransferase
From Pathogenic Bacterium Leptospira Interrogans
pdb|2HNK|B Chain B, Crystal Structure Of Sam-dependent O-methyltransferase
From Pathogenic Bacterium Leptospira Interrogans
pdb|2HNK|C Chain C, Crystal Structure Of Sam-dependent O-methyltransferase
From Pathogenic Bacterium Leptospira Interrogans
Length = 239
Score = 25.4 bits (54), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 35/76 (46%), Gaps = 5/76 (6%)
Query: 31 FRESGCENCPFFKMDEDHERVVDCT---TPNFNGIISVMDPTRSWAARWLRIGRFVPGCY 87
FR S E F K+ ++ + +P ++++ S A R + IG F G
Sbjct: 17 FRNSVREPDSFLKLRKETGTLAQANMQISPEEGQFLNILTKI-SGAKRIIEIGTFT-GYS 74
Query: 88 TLAVSEALPEDLQNLC 103
+L + ALPED + LC
Sbjct: 75 SLCFASALPEDGKILC 90
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 0.139 0.460
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,781,860
Number of Sequences: 62578
Number of extensions: 139011
Number of successful extensions: 296
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 290
Number of HSP's gapped (non-prelim): 8
length of query: 115
length of database: 14,973,337
effective HSP length: 78
effective length of query: 37
effective length of database: 10,092,253
effective search space: 373413361
effective search space used: 373413361
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)