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= 030331
(179 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3NIE|A Chain A, Crystal Structure Of Pf11_0147
pdb|3NIE|B Chain B, Crystal Structure Of Pf11_0147
Length = 429
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 31/61 (50%), Gaps = 6/61 (9%)
Query: 19 CSSSSPTKIERKTIEKNRRDQMKNLYSTLKSLLPNQPSKEELSLPDQVDEAINYIKMLET 78
C SP +K EK+ RDQ+ +++ + + P +E+L + E I YIK+ T
Sbjct: 273 CFPLSPDHNSKKVHEKSNRDQLNIIFNVIGT-----PPEEDLKCITK-QEVIKYIKLFPT 326
Query: 79 K 79
+
Sbjct: 327 R 327
>pdb|2ZWI|A Chain A, Crystal Structure Of AlphaBETA-Galactoside Alpha-2,3-
Sialyltransferase From A Luminous Marine Bacterium,
photobacterium Phosphoreum
pdb|2ZWI|B Chain B, Crystal Structure Of AlphaBETA-Galactoside Alpha-2,3-
Sialyltransferase From A Luminous Marine Bacterium,
photobacterium Phosphoreum
Length = 373
Score = 28.1 bits (61), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 4/40 (10%)
Query: 105 EARLMTSSSPKAPEIEIHEMGSNLEVILTSGVDDQFIFYE 144
EA +MT + P A + MGS++ L + V+++FIFY+
Sbjct: 306 EALIMTDALPDA----VGGMGSSVFFSLPNTVENKFIFYK 341
>pdb|2LFH|A Chain A, Solution Nmr Structure Of The Helix-Loop-Helix Domain Of
Human Id3 Protein, Northeast Structural Genomics
Consortium Target Hr3111a
pdb|2LFH|B Chain B, Solution Nmr Structure Of The Helix-Loop-Helix Domain Of
Human Id3 Protein, Northeast Structural Genomics
Consortium Target Hr3111a
Length = 68
Score = 26.9 bits (58), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 22/41 (53%)
Query: 38 DQMKNLYSTLKSLLPNQPSKEELSLPDQVDEAINYIKMLET 78
D M + YS L+ L+P P +LS + + I+YI L+
Sbjct: 27 DDMNHCYSRLRELVPGVPRGTQLSQVEILQRVIDYILDLQV 67
>pdb|4F3L|A Chain A, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 361
Score = 26.9 bits (58), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 16/32 (50%)
Query: 26 KIERKTIEKNRRDQMKNLYSTLKSLLPNQPSK 57
++ R EK RRDQ L L S+LP K
Sbjct: 13 RVSRNKSEKKRRDQFNVLIKELGSMLPGNARK 44
>pdb|3N9X|A Chain A, Crystal Structure Of Map Kinase From Plasmodium Berghei,
Pb000659.00.0
pdb|3N9X|B Chain B, Crystal Structure Of Map Kinase From Plasmodium Berghei,
Pb000659.00.0
Length = 432
Score = 26.6 bits (57), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 30/58 (51%), Gaps = 6/58 (10%)
Query: 19 CSSSSPTKIERKTIEKNRRDQMKNLYSTLKSLLPNQPSKEELSLPDQVDEAINYIKML 76
C SP + +K EK+ RDQ+ +++ + + P + + ++ P E I YIK+
Sbjct: 268 CFPLSPDRNSKKVHEKSNRDQLNIIFNIIGT--PTEDDLKNINKP----EVIKYIKLF 319
>pdb|3NBN|A Chain A, Crystal Structure Of A Dimer Of Notch Transcription
Complex Trimers On Hes1 Dna
pdb|3NBN|D Chain D, Crystal Structure Of A Dimer Of Notch Transcription
Complex Trimers On Hes1 Dna
Length = 433
Score = 26.6 bits (57), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 26/55 (47%), Gaps = 2/55 (3%)
Query: 90 LQGRERSHACISDGTEARLMTSSSPKAPEIEIHEMGSNLEVILTSGVDDQFIFYE 144
L+ ER + C+S + + PK P E+ G++ +I T ++ FYE
Sbjct: 269 LKDTERMYLCLSQERIIQFQATPCPKEPNKEMINDGASWTIISTDKA--EYTFYE 321
>pdb|2F8X|C Chain C, Crystal Structure Of Activated Notch, Csl And Maml On
Hes-1 Promoter Dna Sequence
pdb|3V79|C Chain C, Structure Of Human Notch1 Transcription Complex Including
Csl, Ram, Ank, And Maml-1 On Hes-1 Promoter Dna Sequence
Length = 434
Score = 26.6 bits (57), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 26/55 (47%), Gaps = 2/55 (3%)
Query: 90 LQGRERSHACISDGTEARLMTSSSPKAPEIEIHEMGSNLEVILTSGVDDQFIFYE 144
L+ ER + C+S + + PK P E+ G++ +I T ++ FYE
Sbjct: 269 LKDTERMYLCLSQERIIQFQATPCPKEPNKEMINDGASWTIISTDKA--EYTFYE 321
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
0.313 0.129 0.356
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,892,496
Number of Sequences: 62578
Number of extensions: 179170
Number of successful extensions: 429
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 420
Number of HSP's gapped (non-prelim): 21
length of query: 179
length of database: 14,973,337
effective HSP length: 93
effective length of query: 86
effective length of database: 9,153,583
effective search space: 787208138
effective search space used: 787208138
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 48 (23.1 bits)