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= 033987
(106 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ID6|A Chain A, Crystal Structure Of Sulfolobus Solfataricus Nop5 (1-262)
And Fibrillarin Complex
Length = 268
Score = 30.0 bits (66), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 28/46 (60%), Gaps = 4/46 (8%)
Query: 49 DSDPDATIVEITFGDRLGALLDTMNALKNLGLNVVKANVFLDSSGK 94
D + ATIV FGDR G L T+++LK LG N + N LD++ K
Sbjct: 178 DHEEYATIVS-RFGDR-GFL--TIDSLKELGFNEQRINRILDAAKK 219
>pdb|3ICX|A Chain A, Crystal Structure Of Sulfolobus Solfataricus Nop5
(135-380)
pdb|3ICX|B Chain B, Crystal Structure Of Sulfolobus Solfataricus Nop5
(135-380)
pdb|3ICX|C Chain C, Crystal Structure Of Sulfolobus Solfataricus Nop5
(135-380)
Length = 255
Score = 29.3 bits (64), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 28/46 (60%), Gaps = 4/46 (8%)
Query: 49 DSDPDATIVEITFGDRLGALLDTMNALKNLGLNVVKANVFLDSSGK 94
D + ATIV FGDR G L T+++LK LG N + N LD++ K
Sbjct: 45 DHEEYATIVS-RFGDR-GFL--TIDSLKELGFNEQRINRILDAAKK 86
>pdb|3ID5|A Chain A, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3ID5|E Chain E, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3PLA|A Chain A, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|B Chain B, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|K Chain K, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
Length = 388
Score = 28.9 bits (63), Expect = 0.81, Method: Composition-based stats.
Identities = 21/46 (45%), Positives = 28/46 (60%), Gaps = 4/46 (8%)
Query: 49 DSDPDATIVEITFGDRLGALLDTMNALKNLGLNVVKANVFLDSSGK 94
D + ATIV FGDR G L T+++LK LG N + N LD++ K
Sbjct: 178 DHEEYATIVS-RFGDR-GFL--TIDSLKELGFNEQRINRILDAAKK 219
>pdb|2OKV|A Chain A, C-Myc Dna Unwinding Element Binding Protein
pdb|2OKV|B Chain B, C-Myc Dna Unwinding Element Binding Protein
pdb|2OKV|C Chain C, C-Myc Dna Unwinding Element Binding Protein
pdb|2OKV|D Chain D, C-Myc Dna Unwinding Element Binding Protein
Length = 209
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 67 ALLDTMNALKNLGLNVVKANVFLDSSGKH-NKFAITKAYVL 106
+L DT L+++ ++ VF D SGKH +K + K Y +
Sbjct: 34 SLEDTQKELEHMVRKILNLRVFEDESGKHWSKSVMDKQYEI 74
>pdb|2X5D|A Chain A, Crystal Structure Of A Probable Aminotransferase From
Pseudomonas Aeruginosa
pdb|2X5D|B Chain B, Crystal Structure Of A Probable Aminotransferase From
Pseudomonas Aeruginosa
pdb|2X5D|C Chain C, Crystal Structure Of A Probable Aminotransferase From
Pseudomonas Aeruginosa
pdb|2X5D|D Chain D, Crystal Structure Of A Probable Aminotransferase From
Pseudomonas Aeruginosa
Length = 412
Score = 27.3 bits (59), Expect = 2.3, Method: Composition-based stats.
Identities = 13/33 (39%), Positives = 22/33 (66%), Gaps = 1/33 (3%)
Query: 37 DTIPTPKV-IIDLDSDPDATIVEITFGDRLGAL 68
++IP P++ I+ S+P A VE+ F +R+ AL
Sbjct: 168 ESIPKPRMMILGFPSNPTAQCVELDFFERVVAL 200
>pdb|3D1J|A Chain A, Crystal Structure Of E.Coli Gs Mutant Dmgs(C7s;c408s)
Length = 477
Score = 26.6 bits (57), Expect = 3.5, Method: Composition-based stats.
Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 64 RLGALLDTMN--ALKNLGLNVVKANVFLDSSGKHNKFAITKAYVL 106
R G L DT++ +L+NL V VF DS+ AI +A+VL
Sbjct: 397 RTGGLADTVSDSSLENLADGVASGFVFEDSNAWSLLRAIRRAFVL 441
>pdb|3COP|A Chain A, Crystal Structure Of E.Coli Gs Mutant E377a In Complex
With Adp And Acceptor Analogue Heppso
pdb|3CX4|A Chain A, Crystal Structure Of E.Coli Gs Mutant E377a In Complex
With Adp And Oligosaccharides
Length = 485
Score = 26.6 bits (57), Expect = 3.5, Method: Composition-based stats.
Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 64 RLGALLDTMN--ALKNLGLNVVKANVFLDSSGKHNKFAITKAYVL 106
R G L DT++ +L+NL V VF DS+ AI +A+VL
Sbjct: 397 RTGGLADTVSDCSLENLADGVASGFVFEDSNAWSLLRAIRRAFVL 441
>pdb|2QZS|A Chain A, Crystal Structure Of Wild-Type E.Coli Gs In Complex With
Adp And Glucose(Wtgsb)
pdb|2R4T|A Chain A, Crystal Structure Of Wild-Type E.Coli Gs In Complex With
Adp And Glucose(Wtgsc)
pdb|2R4U|A Chain A, Crystal Structure Of Wild-Type E.Coli Gs In Complex With
Adp And Glucose(Wtgsd)
pdb|3GUH|A Chain A, Crystal Structure Of Wild-Type E.Coli Gs In Complex With
Adp And Dgm
Length = 485
Score = 26.6 bits (57), Expect = 3.5, Method: Composition-based stats.
Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 64 RLGALLDTMN--ALKNLGLNVVKANVFLDSSGKHNKFAITKAYVL 106
R G L DT++ +L+NL V VF DS+ AI +A+VL
Sbjct: 397 RTGGLADTVSDCSLENLADGVASGFVFEDSNAWSLLRAIRRAFVL 441
>pdb|2IFY|A Chain A, Structure Of Bacillus Anthracis Cofactor-Independent
Phosphoglucerate Mutase
Length = 508
Score = 26.2 bits (56), Expect = 5.2, Method: Composition-based stats.
Identities = 15/35 (42%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 23 SSATAVEDG-SNGDTDTIPTPKVIIDLDSDPDATI 56
S+ VED +NG D P VI++ D+ P ATI
Sbjct: 213 SAEECVEDSYANGIYDEFVLPSVIVNEDNTPVATI 247
>pdb|1U5W|A Chain A, Crystal Structure Of Hypothetical Protein Yjjx From
Escherichia Coli
pdb|1U5W|B Chain B, Crystal Structure Of Hypothetical Protein Yjjx From
Escherichia Coli
pdb|1U5W|C Chain C, Crystal Structure Of Hypothetical Protein Yjjx From
Escherichia Coli
pdb|1U5W|D Chain D, Crystal Structure Of Hypothetical Protein Yjjx From
Escherichia Coli
pdb|1U5W|E Chain E, Crystal Structure Of Hypothetical Protein Yjjx From
Escherichia Coli
pdb|1U5W|F Chain F, Crystal Structure Of Hypothetical Protein Yjjx From
Escherichia Coli
pdb|1U5W|G Chain G, Crystal Structure Of Hypothetical Protein Yjjx From
Escherichia Coli
pdb|1U5W|H Chain H, Crystal Structure Of Hypothetical Protein Yjjx From
Escherichia Coli
Length = 184
Score = 25.8 bits (55), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 23/112 (20%), Positives = 46/112 (41%), Gaps = 30/112 (26%)
Query: 13 SSATRIIPRASSATAVEDGSNGDTD------------------TIPTPKVIIDLDSDPDA 54
++A R++P A A+E G +GD+ T+P P VI++
Sbjct: 63 ANARRLLPEADFWVAIEAGIDGDSTFSWVVIENASQRGEARSATLPLPAVILE------- 115
Query: 55 TIVEITFGDRLGALLDTMNALKNLGLNVVKANVFLDSSGKHNKFAITKAYVL 106
++ G+ LG ++ + +G VF ++GK + ++ V+
Sbjct: 116 ---KVREGEALGPVMSRYTGIDEIGRKEGAIGVF--TAGKLTRASVYHQAVI 162
>pdb|4IFD|B Chain B, Crystal Structure Of An 11-subunit Eukaryotic Exosome
Complex Bound To Rna
Length = 248
Score = 25.4 bits (54), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 35/86 (40%), Gaps = 18/86 (20%)
Query: 10 RFSSSATRIIPRASSATAVEDGSNGDTDTIPTPKVIIDLDSDPDATIVEITFGDRLGALL 69
RF SS A ++ +E G+N + PK +P RL + +
Sbjct: 26 RFESSINTHPHAADGSSYMEQGNNKIITLVKGPK-------EP-----------RLKSQM 67
Query: 70 DTMNALKNLGLNVVKANVFLDSSGKH 95
DT AL N+ +N+ K + F S H
Sbjct: 68 DTSKALLNVSVNITKFSKFERSKSSH 93
>pdb|1XRS|A Chain A, Crystal Structure Of Lysine 5,6-Aminomutase In Complex
With Plp, Cobalamin, And 5'-Deoxyadenosine
Length = 516
Score = 25.4 bits (54), Expect = 9.0, Method: Composition-based stats.
Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 8/45 (17%)
Query: 35 DTDTIPTPKVIIDLDSDPDATIVEITFGDRLGALLDTMNALKNLG 79
DTD +P P +++D + + G LGA + NA+ N G
Sbjct: 52 DTDEVPLPNIVVDHIKENN--------GLNLGAAMYIANAVLNTG 88
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 0.133 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,929,583
Number of Sequences: 62578
Number of extensions: 104890
Number of successful extensions: 310
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 303
Number of HSP's gapped (non-prelim): 24
length of query: 106
length of database: 14,973,337
effective HSP length: 71
effective length of query: 35
effective length of database: 10,530,299
effective search space: 368560465
effective search space used: 368560465
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)