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= 033478
(118 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ZEY|W Chain W, High-resolution Cryo-electron Microscopy Structure Of
The Trypanosoma Brucei Ribosome
Length = 86
Score = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 30/59 (50%), Gaps = 2/59 (3%)
Query: 39 RRLLAYPRGA-RHVKCSCCQTVNFVLEAHQVGQVKCASCAVLLMYPYGAPSVRCSSCCF 96
RRL+ P VKC C+ + V+ +H +VKC CA LL P G ++ + C F
Sbjct: 23 RRLVQGPNSYFMDVKCPGCKNIT-VVYSHATSEVKCNGCATLLCRPTGGKAMLVTGCGF 80
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 25/56 (44%), Gaps = 4/56 (7%)
Query: 32 QMVCGSCRRLLAYPRGA--RHVKCSCCQTVNFVLEAHQVGQVKCASCAVLLMYPYG 85
++ C C LL P A H C C T+N+ + G+ C C V YP+G
Sbjct: 19 EVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRV--PYPFG 72
>pdb|3FN8|A Chain A, Crystal Structure Of Merb Complexed With Mercury
pdb|3FN8|B Chain B, Crystal Structure Of Merb Complexed With Mercury
Length = 220
Score = 25.8 bits (55), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 26/55 (47%), Gaps = 4/55 (7%)
Query: 46 RGARHVKCSCCQT---VNFVLEAHQVGQVKCASCAVLLMYPYGAPSVRCSSCCFV 97
R AR V C T V+ + ++ V+ A AV L+ P A VR S CC V
Sbjct: 109 RTAR-VSSHCAATGAPVSLTVSPSEIQAVEPAGMAVSLVLPQEAADVRQSFCCHV 162
>pdb|1S6L|A Chain A, Solution Structure Of Merb, The Organomercurial Lyase
Involved In The Bacterial Mercury Resistance System
pdb|3F0O|A Chain A, Crystal Structure Of Merb, The Organomercurial Lyase
Involved In A Bacterial Mercury Resistance System
pdb|3F0O|B Chain B, Crystal Structure Of Merb, The Organomercurial Lyase
Involved In A Bacterial Mercury Resistance System
pdb|3F0P|A Chain A, Crystal Structure Of The Mercury-Bound Form Of Merb, The
Organomercurial Lyase Involved In A Bacterial Mercury
Resistance System
pdb|3F0P|B Chain B, Crystal Structure Of The Mercury-Bound Form Of Merb, The
Organomercurial Lyase Involved In A Bacterial Mercury
Resistance System
pdb|3F2F|A Chain A, Crystal Structure Of The Mercury-Bound Form Of Merb, The
Organomercurial Lyase Involved In A Bacterial Mercury
Resistance System
pdb|3F2F|B Chain B, Crystal Structure Of The Mercury-Bound Form Of Merb, The
Organomercurial Lyase Involved In A Bacterial Mercury
Resistance System
Length = 212
Score = 25.8 bits (55), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 26/55 (47%), Gaps = 4/55 (7%)
Query: 46 RGARHVKCSCCQT---VNFVLEAHQVGQVKCASCAVLLMYPYGAPSVRCSSCCFV 97
R AR V C T V+ + ++ V+ A AV L+ P A VR S CC V
Sbjct: 109 RTAR-VSSHCAATGAPVSLTVSPSEIQAVEPAGMAVSLVLPQEAADVRQSFCCHV 162
>pdb|1V98|A Chain A, Crystal Structure Analysis Of Thioredoxin From Thermus
Thermophilus
pdb|1V98|B Chain B, Crystal Structure Analysis Of Thioredoxin From Thermus
Thermophilus
Length = 140
Score = 25.8 bits (55), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 31/66 (46%), Gaps = 2/66 (3%)
Query: 35 CGSCRRLLAYPRGARHVKCSCCQTVNFVLEAHQVGQVKCASCAVLLMYPYGAPSVRCSSC 94
CG+ RL P G V +C + +V+EA + G + + A L + + AP C C
Sbjct: 8 CGAKNRLGTPPPGQVPVCGACKTPLPWVVEADEKGFAQEVAGAPLTLVDFFAPW--CGPC 65
Query: 95 CFVTEI 100
V+ I
Sbjct: 66 RLVSPI 71
>pdb|2B94|A Chain A, Structural Analysis Of P Knowlesi Homolog Of P Falciparum
Pnp
Length = 267
Score = 25.4 bits (54), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 31/66 (46%), Gaps = 2/66 (3%)
Query: 29 EMAQMVCGSCRRLLAYPRGARHVKCSCCQTVNFVLEAHQVGQVKCASCAVLLMYPYGAPS 88
+ +M+C S L AY R + V+C+ + F+ +H VG CA C LM
Sbjct: 52 DKVKMLCDSYVDL-AYNREYKSVECTY-KGQKFLCVSHGVGSAGCAICFEELMNNGAKVI 109
Query: 89 VRCSSC 94
+R SC
Sbjct: 110 IRAGSC 115
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
0.330 0.134 0.477
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,147,812
Number of Sequences: 62578
Number of extensions: 100121
Number of successful extensions: 200
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 196
Number of HSP's gapped (non-prelim): 15
length of query: 118
length of database: 14,973,337
effective HSP length: 81
effective length of query: 37
effective length of database: 9,904,519
effective search space: 366467203
effective search space used: 366467203
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (22.0 bits)
S2: 45 (21.9 bits)