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= 006225
(655 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WIM|A Chain A, Solution Structure Of The Ring Finger Domain Of The Human
Ubcm4-Interacting Protein 4
Length = 94
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 43/82 (52%), Gaps = 3/82 (3%)
Query: 351 CRICFSEFAGTDFVRLP-CHHFFCWKCMKTYLDIHISEGTVSKLQCPDAKC--GGMVPPS 407
C++C E+ + C FC C+K Y+++ I EG + + CPDA C G + +
Sbjct: 8 CKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQEN 67
Query: 408 LLKKLLGDEEFERWESLMLQKT 429
++ ++ E +R++ L +++
Sbjct: 68 EIECMVAAEIMQRYKKLQFERS 89
>pdb|1WD2|A Chain A, Solution Structure Of The C-Terminal Ring From A Ring-Ibr-
Ring (Triad) Motif
Length = 60
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 517 ILRDAKQCPSCKMAISRTEGCNKIVC--NNCGQYFCYRC 553
I + K+CP C + I + GCN +VC NC FC+ C
Sbjct: 2 IAANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVC 40
>pdb|2L0B|A Chain A, Solution Nmr Structure Of Zinc Finger Domain Of E3
Ubiquitin-Protein Ligase Praja-1 From Homo Sapiens,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4710b
Length = 91
Score = 32.7 bits (73), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 28/59 (47%), Gaps = 11/59 (18%)
Query: 351 CRICFSEFAGTDFV-RLPCHHFFCWKCMKTYLDIHISEGTVSKLQCPDAKCGGMVPPSL 408
C IC SE+ D LPCHH+F C+ +L GT CP +C M PP L
Sbjct: 43 CPICCSEYVKGDVATELPCHHYFHKPCVSIWLQ---KSGT-----CPVCRC--MFPPPL 91
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 342 ENFLKSFHECRICFSEFAGTDFVR-LPCHHFFCWKCMKTYLDIHIS 386
E + S EC +C ++A + VR LPC+H F C+ +L+ H S
Sbjct: 9 EEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDS 54
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 30.0 bits (66), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 20/40 (50%), Gaps = 3/40 (7%)
Query: 345 LKSFHECRICFSEFAGTDFVRLPCHHFFCWKCMKTYLDIH 384
L EC IC A D + LPC H FC KC+ + D H
Sbjct: 12 LTDEEECCICMDGRA--DLI-LPCAHSFCQKCIDKWSDRH 48
>pdb|2DIP|A Chain A, Solution Structure Of The Zz Domain Of Zinc Finger Swim
Domain Containing Protein 2
Length = 98
Score = 29.3 bits (64), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 580 EERLNARQVVAQIQADMFDEH-GLSCPNCRQF 610
EE N+ ++VA + + D+H G+ C NC+QF
Sbjct: 9 EEFKNSSKLVAAAEKERLDKHLGIPCNNCKQF 40
>pdb|1T2R|A Chain A, Structural Basis For 3' End Recognition Of Nucleic Acids
By The Drosophila Argonaute 2 Paz Domain
pdb|1T2S|A Chain A, Structural Basis For 3' End Recognition Of Nucleic Acids
By The Drosophila Argonaute 2 Paz Domain
Length = 123
Score = 29.3 bits (64), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 22/40 (55%)
Query: 192 VETLDGLTVTAKLNSSTDLDARSESSDDFSYSFKVQYLPP 231
+E L+ ++ AK+N++T+LD + F V Y PP
Sbjct: 8 IEYLERFSLKAKINNTTNLDYSRRFLEPFLRGINVVYTPP 47
>pdb|3MJ0|A Chain A, Crystal Structure Of Drosophia Ago-Paz Domain In Complex
With 3'-End 2'-O-Methylated Rna
Length = 124
Score = 29.3 bits (64), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 22/40 (55%)
Query: 192 VETLDGLTVTAKLNSSTDLDARSESSDDFSYSFKVQYLPP 231
+E L+ ++ AK+N++T+LD + F V Y PP
Sbjct: 6 IEYLERFSLKAKINNTTNLDYSRRFLEPFLRGINVVYTPP 45
>pdb|1VYN|A Chain A, Structure And Nucleic Acid Binding Of The Drosophila
Argonaute2 Paz Domain
Length = 143
Score = 28.9 bits (63), Expect = 9.7, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 22/40 (55%)
Query: 192 VETLDGLTVTAKLNSSTDLDARSESSDDFSYSFKVQYLPP 231
+E L+ ++ AK+N++T+LD + F V Y PP
Sbjct: 8 IEYLERFSLKAKINNTTNLDYSRRFLEPFLRGINVVYTPP 47
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
0.320 0.135 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,337,664
Number of Sequences: 62578
Number of extensions: 719582
Number of successful extensions: 1348
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 1335
Number of HSP's gapped (non-prelim): 29
length of query: 655
length of database: 14,973,337
effective HSP length: 105
effective length of query: 550
effective length of database: 8,402,647
effective search space: 4621455850
effective search space used: 4621455850
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)