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= 030300
(179 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WFL|A Chain A, Solution Structure Of The Zf-An1 Domain From Mouse Zinc
Finger Protein 216
Length = 74
Score = 76.6 bits (187), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 33/54 (61%), Positives = 39/54 (72%)
Query: 107 ESVEAKPKEGPSRCSSCKKRVGLTGFKCRCGNLYCVSHRYSDKHNCPFDYRTAA 160
E PK +RC C+K+VGLTGF CRCGNL+C HRYSDKHNCP+DY+ A
Sbjct: 15 EKAPELPKPKKNRCFMCRKKVGLTGFDCRCGNLFCGLHRYSDKHNCPYDYKAEA 68
>pdb|1WFH|A Chain A, Solution Structrue Of The Zf-An1 Domain From Arabidopsis
Thaliana At2g36320 Protein
Length = 64
Score = 65.9 bits (159), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 26/44 (59%), Positives = 34/44 (77%)
Query: 117 PSRCSSCKKRVGLTGFKCRCGNLYCVSHRYSDKHNCPFDYRTAA 160
P+RC+ C+KRVGLTGF CRCG +C SHRY + H C FD+++A
Sbjct: 15 PNRCTVCRKRVGLTGFMCRCGTTFCGSHRYPEVHGCTFDFKSAG 58
>pdb|1WFP|A Chain A, Solution Structure Of The Zf-an1 Domain From Arabiopsis
Thaliana F5o11.17 Protein
Length = 74
Score = 65.1 bits (157), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 26/48 (54%), Positives = 35/48 (72%)
Query: 113 PKEGPSRCSSCKKRVGLTGFKCRCGNLYCVSHRYSDKHNCPFDYRTAA 160
PK +RC SC K+VG+TGFKCRCG+ +C +HRY + H C FD++ A
Sbjct: 21 PKSTATRCLSCNKKVGVTGFKCRCGSTFCGTHRYPESHECQFDFKGVA 68
>pdb|1WFF|A Chain A, Solution Structure Of The Zf-An1 Domain From Mouse Riken
Cdna 2810002d23 Protein
Length = 85
Score = 63.2 bits (152), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 27/53 (50%), Positives = 37/53 (69%), Gaps = 1/53 (1%)
Query: 119 RCSSCKKRVGL-TGFKCRCGNLYCVSHRYSDKHNCPFDYRTAARDAIIKANPV 170
C C K+ GL T F+CRCGN +C SHRY++ H C +DY++A R + +ANPV
Sbjct: 27 HCFLCGKKTGLATSFECRCGNNFCASHRYAEAHGCNYDYKSAGRRYLEEANPV 79
>pdb|1WG2|A Chain A, Solution Structure Of Zf-An1 Domain From Arabidopsis
Thaliana
Length = 64
Score = 59.3 bits (142), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 24/49 (48%), Positives = 34/49 (69%)
Query: 112 KPKEGPSRCSSCKKRVGLTGFKCRCGNLYCVSHRYSDKHNCPFDYRTAA 160
+P +RC SC K+VG+ GFKC+CG+ +C SHRY +KH C FD++
Sbjct: 10 RPVRPNNRCFSCNKKVGVMGFKCKCGSTFCGSHRYPEKHECSFDFKEVG 58
>pdb|2KZY|A Chain A, Solution Nmr Structure Of The Znf216 A20 Zinc Finger
pdb|2L00|A Chain A, Solution Structure Of The Non-Covalent Complex Of The
Znf216 A20 Domain With Ubiquitin
Length = 62
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 23/35 (65%)
Query: 21 GPILCINNCGFFGSVATMNMCSKCYKDIMLKQDQA 55
GP+LC CGF+G+ T MCS CYK+ + +Q +
Sbjct: 12 GPMLCSTGCGFYGNPRTNGMCSVCYKEHLQRQQNS 46
>pdb|1X4W|A Chain A, Solution Structure Of The Zf-An1 Domain From Human
Hypothetical Protein Flj13222
Length = 67
Score = 36.6 bits (83), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 26/41 (63%), Gaps = 3/41 (7%)
Query: 119 RCSSCKKRVGLTGFK---CRCGNLYCVSHRYSDKHNCPFDY 156
RC C+ ++ L + CRCG ++C+ HR ++H+C FD+
Sbjct: 17 RCFQCQTKLELVQQELGSCRCGYVFCMLHRLPEQHDCTFDH 57
>pdb|2FID|B Chain B, Crystal Structure Of A Bovine Rabex-5 Fragment Complexed
With Ubiquitin
pdb|2FIF|B Chain B, Crystal Structure Of A Bovine Rabex-5 Fragment Complexed
With Ubiquitin
pdb|2FIF|D Chain D, Crystal Structure Of A Bovine Rabex-5 Fragment Complexed
With Ubiquitin
pdb|2FIF|F Chain F, Crystal Structure Of A Bovine Rabex-5 Fragment Complexed
With Ubiquitin
Length = 70
Score = 34.3 bits (77), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 23 ILCINNCGFFGSVATMNMCSKCYKDIMLKQDQAKL 57
+LC CG++G+ A CSKC+++ K Q ++
Sbjct: 14 LLCKKGCGYYGNPAWQGFCSKCWREEYHKARQKQI 48
>pdb|2C7M|A Chain A, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|A Chain A, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|C Chain C, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|E Chain E, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|G Chain G, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|I Chain I, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|K Chain K, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
Length = 74
Score = 34.3 bits (77), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 23 ILCINNCGFFGSVATMNMCSKCYKDIMLKQDQAKL 57
+LC CG++G+ A CSKC+++ K Q ++
Sbjct: 17 LLCKKGCGYYGNPAWQGFCSKCWREEYHKARQKQI 51
>pdb|3MYR|B Chain B, Crystal Structure Of [nife] Hydrogenase From
Allochromatium Vinosum In Its Ni-A State
pdb|3MYR|D Chain D, Crystal Structure Of [nife] Hydrogenase From
Allochromatium Vinosum In Its Ni-A State
pdb|3MYR|F Chain F, Crystal Structure Of [nife] Hydrogenase From
Allochromatium Vinosum In Its Ni-A State
pdb|3MYR|H Chain H, Crystal Structure Of [nife] Hydrogenase From
Allochromatium Vinosum In Its Ni-A State
Length = 561
Score = 30.8 bits (68), Expect = 0.45, Method: Composition-based stats.
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 95 ISVQPSCASELSESVEAKPKEGPSRCSSCKKRV 127
+S P SEL++S+ A PK P + +KR+
Sbjct: 123 LSADPRATSELAQSISAWPKSSPGYFADTQKRI 155
>pdb|1SU1|A Chain A, Structural And Biochemical Characterization Of Yfce, A
Phosphoesterase From E. Coli
pdb|1SU1|B Chain B, Structural And Biochemical Characterization Of Yfce, A
Phosphoesterase From E. Coli
pdb|1SU1|C Chain C, Structural And Biochemical Characterization Of Yfce, A
Phosphoesterase From E. Coli
pdb|1SU1|D Chain D, Structural And Biochemical Characterization Of Yfce, A
Phosphoesterase From E. Coli
Length = 208
Score = 28.1 bits (61), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 1/70 (1%)
Query: 62 IGSIVNETSSSNGSESVAAATVDVQASSVEPKIISVQPSCASELSESVEAKPKEGP-SRC 120
+G ++N + E A A V + + V K+I+V+ +C SE+ + + P P +
Sbjct: 59 LGDVLNHGPRNALPEGYAPAKVVERLNEVAHKVIAVRGNCDSEVDQMLLHFPITAPWQQV 118
Query: 121 SSCKKRVGLT 130
K+R+ LT
Sbjct: 119 LLEKQRLFLT 128
>pdb|1EJ6|A Chain A, Reovirus Core
pdb|2CSE|U Chain U, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed By
Electron And Image Reconstruction Of The Virion At 7.0-A
Resolution
Length = 1289
Score = 27.7 bits (60), Expect = 3.2, Method: Composition-based stats.
Identities = 19/69 (27%), Positives = 29/69 (42%), Gaps = 7/69 (10%)
Query: 60 SSIGSIVNETSSSNGSESVAAATVDVQASSVEPKIISVQ-----PSCASELSESVEAKPK 114
SS G +V+ +NG + Q S P II+ SC + S +V A+P
Sbjct: 216 SSAGVLVHYDKPTNGHHYLLGTLT--QMVSAPPYIINATDAMLLESCLEQFSANVRARPA 273
Query: 115 EGPSRCSSC 123
+ +R C
Sbjct: 274 QPVTRLDQC 282
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
0.315 0.129 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,986,816
Number of Sequences: 62578
Number of extensions: 172295
Number of successful extensions: 341
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 327
Number of HSP's gapped (non-prelim): 20
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 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 48 (23.1 bits)