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= 031253
(163 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WFP|A Chain A, Solution Structure Of The Zf-an1 Domain From Arabiopsis
Thaliana F5o11.17 Protein
Length = 74
Score = 67.0 bits (162), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 28/43 (65%), Positives = 31/43 (72%)
Query: 98 SVKRRCEICNKKVGLIEFKCRCGHLYCGTHRYPKEHACTFDFK 140
S RC CNKKVG+ FKCRCG +CGTHRYP+ H C FDFK
Sbjct: 23 STATRCLSCNKKVGVTGFKCRCGSTFCGTHRYPESHECQFDFK 65
>pdb|1WFH|A Chain A, Solution Structrue Of The Zf-An1 Domain From Arabidopsis
Thaliana At2g36320 Protein
Length = 64
Score = 63.5 bits (153), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 25/39 (64%), Positives = 30/39 (76%)
Query: 102 RCEICNKKVGLIEFKCRCGHLYCGTHRYPKEHACTFDFK 140
RC +C K+VGL F CRCG +CG+HRYP+ H CTFDFK
Sbjct: 17 RCTVCRKRVGLTGFMCRCGTTFCGSHRYPEVHGCTFDFK 55
>pdb|1WG2|A Chain A, Solution Structure Of Zf-An1 Domain From Arabidopsis
Thaliana
Length = 64
Score = 63.5 bits (153), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 25/40 (62%), Positives = 34/40 (85%)
Query: 102 RCEICNKKVGLIEFKCRCGHLYCGTHRYPKEHACTFDFKK 141
RC CNKKVG++ FKC+CG +CG+HRYP++H C+FDFK+
Sbjct: 17 RCFSCNKKVGVMGFKCKCGSTFCGSHRYPEKHECSFDFKE 56
>pdb|1WFL|A Chain A, Solution Structure Of The Zf-An1 Domain From Mouse Zinc
Finger Protein 216
Length = 74
Score = 57.4 bits (137), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 24/41 (58%), Positives = 30/41 (73%)
Query: 100 KRRCEICNKKVGLIEFKCRCGHLYCGTHRYPKEHACTFDFK 140
K RC +C KKVGL F CRCG+L+CG HRY +H C +D+K
Sbjct: 25 KNRCFMCRKKVGLTGFDCRCGNLFCGLHRYSDKHNCPYDYK 65
>pdb|1WFF|A Chain A, Solution Structure Of The Zf-An1 Domain From Mouse Riken
Cdna 2810002d23 Protein
Length = 85
Score = 57.0 bits (136), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 23/56 (41%), Positives = 35/56 (62%), Gaps = 1/56 (1%)
Query: 99 VKRRCEICNKKVGL-IEFKCRCGHLYCGTHRYPKEHACTFDFKKFDREMLVKDNPL 153
+ + C +C KK GL F+CRCG+ +C +HRY + H C +D+K R L + NP+
Sbjct: 24 IMKHCFLCGKKTGLATSFECRCGNNFCASHRYAEAHGCNYDYKSAGRRYLEEANPV 79
>pdb|1X4W|A Chain A, Solution Structure Of The Zf-An1 Domain From Human
Hypothetical Protein Flj13222
Length = 67
Score = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 29/42 (69%), Gaps = 3/42 (7%)
Query: 100 KRRCEICNKKVGLIEFK---CRCGHLYCGTHRYPKEHACTFD 138
+RRC C K+ L++ + CRCG+++C HR P++H CTFD
Sbjct: 15 RRRCFQCQTKLELVQQELGSCRCGYVFCMLHRLPEQHDCTFD 56
>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 = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 8 MCIKGCGFYGSKENKNMCSKCYDDYLKAE 36
+C GCGFYG+ MCS CY ++L+ +
Sbjct: 15 LCSTGCGFYGNPRTNGMCSVCYKEHLQRQ 43
>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 = 33.5 bits (75), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 27/36 (75%), Gaps = 2/36 (5%)
Query: 1 MDRNNVTMCIKGCGFYGSKENKNMCSKCY-DDYLKA 35
+D++++ +C KGCG+YG+ + CSKC+ ++Y KA
Sbjct: 12 VDQSDL-LCKKGCGYYGNPAWQGFCSKCWREEYHKA 46
>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 = 33.1 bits (74), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 21/29 (72%), Gaps = 1/29 (3%)
Query: 8 MCIKGCGFYGSKENKNMCSKCY-DDYLKA 35
+C KGCG+YG+ + CSKC+ ++Y KA
Sbjct: 15 LCKKGCGYYGNPAWQGFCSKCWREEYHKA 43
>pdb|3OJ3|I Chain I, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|J Chain J, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|K Chain K, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|L Chain L, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|M Chain M, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|N Chain N, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|O Chain O, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|P Chain P, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ4|C Chain C, Crystal Structure Of The A20 Znf4, Ubiquitin And Ubch5a
Complex
pdb|3OJ4|F Chain F, Crystal Structure Of The A20 Znf4, Ubiquitin And Ubch5a
Complex
Length = 49
Score = 30.8 bits (68), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 2 DRNNVTMCIK-GCGFYGSKENKNMCSKCYDDY 32
DR + C K GC ++G+ ENK C+ C+ +Y
Sbjct: 14 DRTGTSKCRKAGCVYFGTPENKGFCTLCFIEY 45
>pdb|2EQE|A Chain A, Solution Structure Of The Fourth A20-Type Zinc Finger
Domain From Human Tumor Necrosis Factor, Alpha-Induced
Protein3
Length = 48
Score = 30.8 bits (68), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 2 DRNNVTMCIK-GCGFYGSKENKNMCSKCYDDY 32
DR + C K GC ++G+ ENK C+ C+ +Y
Sbjct: 11 DRTGTSKCRKAGCVYFGTPENKGFCTLCFIEY 42
>pdb|2KWQ|A Chain A, Mcm10 C-Terminal Dna Binding Domain
Length = 92
Score = 26.2 bits (56), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 115 FKCRCGHLYCGTHRYPKEHACTFDFKKFDREMLVKD 150
FKC CG+ R PK+H T K++R ++K+
Sbjct: 49 FKCPCGNRTISLDRLPKKHCSTCGLFKWERVGMLKE 84
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 0.136 0.438
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,888,598
Number of Sequences: 62578
Number of extensions: 171720
Number of successful extensions: 284
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 268
Number of HSP's gapped (non-prelim): 17
length of query: 163
length of database: 14,973,337
effective HSP length: 91
effective length of query: 72
effective length of database: 9,278,739
effective search space: 668069208
effective search space used: 668069208
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: 47 (22.7 bits)