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= 037934
(141 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 = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/43 (48%), Positives = 25/43 (58%), Gaps = 3/43 (6%)
Query: 76 AAVEYSSAKTTSALEKRCEICDKKVGSIELKCRCGHLYCGTHR 118
AA K+T+ RC C+KKVG KCRCG +CGTHR
Sbjct: 14 AAAPLDPPKSTAT---RCLSCNKKVGVTGFKCRCGSTFCGTHR 53
>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 = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 17/35 (48%), Positives = 20/35 (57%)
Query: 3 PPLCTKGCGFYGTKEHKSMCSNCYNDFLEEQVTDG 37
P LC+ GCGFYG MCS CY + L+ Q G
Sbjct: 13 PMLCSTGCGFYGNPRTNGMCSVCYKEHLQRQQNSG 47
>pdb|1WFL|A Chain A, Solution Structure Of The Zf-An1 Domain From Mouse Zinc
Finger Protein 216
Length = 74
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/39 (46%), Positives = 23/39 (58%)
Query: 90 EKRCEICDKKVGSIELKCRCGHLYCGTHRKFDRETLVED 128
+ RC +C KKVG CRCG+L+CG HR D+ D
Sbjct: 25 KNRCFMCRKKVGLTGFDCRCGNLFCGLHRYSDKHNCPYD 63
>pdb|1WG2|A Chain A, Solution Structure Of Zf-An1 Domain From Arabidopsis
Thaliana
Length = 64
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 15/27 (55%), Positives = 20/27 (74%)
Query: 92 RCEICDKKVGSIELKCRCGHLYCGTHR 118
RC C+KKVG + KC+CG +CG+HR
Sbjct: 17 RCFSCNKKVGVMGFKCKCGSTFCGSHR 43
>pdb|1WFH|A Chain A, Solution Structrue Of The Zf-An1 Domain From Arabidopsis
Thaliana At2g36320 Protein
Length = 64
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 18/28 (64%)
Query: 91 KRCEICDKKVGSIELKCRCGHLYCGTHR 118
RC +C K+VG CRCG +CG+HR
Sbjct: 16 NRCTVCRKRVGLTGFMCRCGTTFCGSHR 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 = 33.1 bits (74), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 5 LCTKGCGFYGTKEHKSMCSNCYND 28
LC KGCG+YG + CS C+ +
Sbjct: 18 LCKKGCGYYGNPAWQGFCSKCWRE 41
>pdb|1WFF|A Chain A, Solution Structure Of The Zf-An1 Domain From Mouse Riken
Cdna 2810002d23 Protein
Length = 85
Score = 33.1 bits (74), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 13/61 (21%)
Query: 84 KTTSALEKRCEICDKKVG-SIELKCRCGHLYCGTHR-------KFD-----RETLVEDNP 130
+T + K C +C KK G + +CRCG+ +C +HR +D R L E NP
Sbjct: 19 QTKKKIMKHCFLCGKKTGLATSFECRCGNNFCASHRYAEAHGCNYDYKSAGRRYLEEANP 78
Query: 131 L 131
+
Sbjct: 79 V 79
>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 = 0.059, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 5 LCTKGCGFYGTKEHKSMCSNCYND 28
LC KGCG+YG + CS C+ +
Sbjct: 15 LCKKGCGYYGNPAWQGFCSKCWRE 38
>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 = 26.2 bits (56), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 9/25 (36%), Positives = 17/25 (68%)
Query: 9 GCGFYGTKEHKSMCSNCYNDFLEEQ 33
GC ++GT E+K C+ C+ ++ E +
Sbjct: 25 GCVYFGTPENKGFCTLCFIEYRENK 49
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 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,951,897
Number of Sequences: 62578
Number of extensions: 127230
Number of successful extensions: 296
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 285
Number of HSP's gapped (non-prelim): 12
length of query: 141
length of database: 14,973,337
effective HSP length: 89
effective length of query: 52
effective length of database: 9,403,895
effective search space: 489002540
effective search space used: 489002540
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: 46 (22.3 bits)