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= 033000
(129 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1N0Z|A Chain A, Solution Structure Of The First Zinc-Finger Domain From
Znf265
Length = 45
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 18/33 (54%)
Query: 46 EVLAGDWYCTAMNCGAHNYASRPNCYRCGAAKT 78
V GDW C CG N+A R +C RCG KT
Sbjct: 9 RVSDGDWICPDKKCGNVNFARRTSCDRCGREKT 41
Score = 33.9 bits (76), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 2/37 (5%)
Query: 1 MSLPGGDWMC--AACQHQNFKKREACQRCGYPKYGGP 35
+ GDW+C C + NF +R +C RCG K GP
Sbjct: 8 FRVSDGDWICPDKKCGNVNFARRTSCDRCGREKTTGP 44
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 101 GDWICNRMGCGVHNYASRMVCYKC 124
GDWIC CG N+A R C +C
Sbjct: 13 GDWICPDKKCGNVNFARRTSCDRC 36
>pdb|3G9Y|A Chain A, Crystal Structure Of The Second Zinc Finger From
Zranb2ZNF265 BOUND To 6 Nt Ssrna Sequence Agguaa
pdb|2K1P|A Chain A, Solution Structure Of The Second Zinc Finger Domain Of
Zranb2ZNF265
Length = 33
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 14/29 (48%)
Query: 5 GGDWMCAACQHQNFKKREACQRCGYPKYG 33
DW C C + N+ +R C C PKY
Sbjct: 4 ANDWQCKTCSNVNWARRSECNMCNTPKYA 32
>pdb|2LK0|A Chain A, Solution Structure And Binding Studies Of The
Ranbp2-Type Zinc Finger Of Rbm5
pdb|2LK1|A Chain A, Solution Structure And Binding Studies Of The
Ranbp2-Type Zinc Finger Of Rbm5
Length = 32
Score = 29.3 bits (64), Expect = 0.63, Method: Composition-based stats.
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 7 DWMCAACQHQNFKKREACQRCGYPKY 32
DW+C C NF+KR C RCG K+
Sbjct: 5 DWLCNKCCLNNFRKRLKCFRCGADKF 30
>pdb|2PUY|A Chain A, Crystal Structure Of The Bhc80 Phd Finger
pdb|2PUY|B Chain B, Crystal Structure Of The Bhc80 Phd Finger
Length = 60
Score = 28.9 bits (63), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 2 SLPGGDWMCAACQHQNFKKREA 23
++P G W+C CQ Q KK EA
Sbjct: 38 TIPKGMWICPRCQDQMLKKEEA 59
>pdb|4ART|A Chain A, Structure Of The Orf273 Protein From The Acidianus
Two-Tailed Virus
pdb|4ART|B Chain B, Structure Of The Orf273 Protein From The Acidianus
Two-Tailed Virus
Length = 279
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 31/75 (41%), Gaps = 4/75 (5%)
Query: 36 DVSTYLCNRTEVLAGDWYCTAMNCGAHNYASRPNCYRCGAAKTDYACANMMAYGTDGSVP 95
D+ + +LAG Y A+ H Y N ++ A K A A + + T V
Sbjct: 193 DIERIVAEEQPILAGYTYDEALRIPYHYYVDHNNSFKDDALKI--AHAYLQLFPTPYQVC 250
Query: 96 PGWKSGDWICNRMGC 110
WK+ W N++ C
Sbjct: 251 YEWKAR-WF-NKIDC 263
>pdb|4ATS|A Chain A, Structure Of The Orf273 Protein From The Acidianus Two-
Tailed Virus
Length = 293
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 31/75 (41%), Gaps = 4/75 (5%)
Query: 36 DVSTYLCNRTEVLAGDWYCTAMNCGAHNYASRPNCYRCGAAKTDYACANMMAYGTDGSVP 95
D+ + +LAG Y A+ H Y N ++ A K A A + + T V
Sbjct: 213 DIERIVAEEQPILAGYTYDEALRIPYHYYVDHNNSFKDDALKI--AHAYLQLFPTPYQVC 270
Query: 96 PGWKSGDWICNRMGC 110
WK+ W N++ C
Sbjct: 271 YEWKAR-WF-NKIDC 283
>pdb|1O75|A Chain A, Tp47, The 47-Kilodalton Lipoprotein Of Treponema Pallidum
pdb|1O75|B Chain B, Tp47, The 47-Kilodalton Lipoprotein Of Treponema Pallidum
Length = 415
Score = 26.9 bits (58), Expect = 3.3, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 25/55 (45%), Gaps = 4/55 (7%)
Query: 63 NYASRPNCYRCGAAKTDYACANMMA-YGTDGSVPPGWKSGDWICNRMGCGVHNYA 116
+Y N R D + N+MA YGT S WK+G R+ CG+ NY
Sbjct: 250 DYVMNFNTVRYDYYGDDASYTNLMASYGTKHSADSWWKTGR--VPRISCGI-NYG 301
>pdb|3NWR|A Chain A, Crystal Structure Of A Rubisco-Like Protein From
Burkholderia Fungorum
Length = 432
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 82 CANMMAYGTDGSVPPGWKSGDW 103
CA +A G D +V P + SG W
Sbjct: 339 CATPLAAGCDDAVLPAFSSGQW 360
>pdb|4APS|A Chain A, Crystal Structure Of A Pot Family Peptide Transporter In
An Inward Open Conformation.
pdb|4APS|B Chain B, Crystal Structure Of A Pot Family Peptide Transporter In
An Inward Open Conformation
Length = 491
Score = 25.8 bits (55), Expect = 6.0, Method: Composition-based stats.
Identities = 9/16 (56%), Positives = 9/16 (56%)
Query: 88 YGTDGSVPPGWKSGDW 103
YGT G V P W G W
Sbjct: 378 YGTSGKVSPLWLVGSW 393
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
0.323 0.136 0.504
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,858,626
Number of Sequences: 62578
Number of extensions: 190392
Number of successful extensions: 418
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 398
Number of HSP's gapped (non-prelim): 30
length of query: 129
length of database: 14,973,337
effective HSP length: 88
effective length of query: 41
effective length of database: 9,466,473
effective search space: 388125393
effective search space used: 388125393
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)