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= 003073
(850 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WEO|A Chain A, Solution Structure Of Ring-Finger In The Catalytic
Subunit (Irx3) Of Cellulose Synthase
Length = 93
Score = 111 bits (277), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 47/76 (61%), Positives = 61/76 (80%)
Query: 3 SEGETGVKSIKNVGGQVCQICGDNVGKTVDGNPFVACDVCAFPVCRPCYEYERKDGNQSC 62
S G +G K +KN+ GQ C+ICGD +G TV+G+ FVAC+ C FP CRPCYEYER++G Q+C
Sbjct: 2 SSGSSGPKPLKNLDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNC 61
Query: 63 PQCKTRYKKHKGSPAI 78
PQCKTRYK+ +GSP +
Sbjct: 62 PQCKTRYKRLRGSPRV 77
>pdb|4HG6|A Chain A, Structure Of A Cellulose Synthase - Cellulose
Translocation Intermediate
Length = 802
Score = 46.6 bits (109), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 41/128 (32%), Positives = 55/128 (42%), Gaps = 19/128 (14%)
Query: 518 LVYVSREKRPGFQHHKKAGAMNALVRVSAVLTNGPFLLNLDCDHYINNSKALREAMCFMM 577
+VY +RE+ H KAG M+A + G ++ D DH + R F+
Sbjct: 214 VVYSTRER----NEHAKAGNMSAALE----RLKGELVVVFDADHVPSRDFLARTVGYFVE 265
Query: 578 DPNLGKHVCYVQFPQRF---DGIDRN----DRYANRNTVFFDINLRGLDGIQGPVYVGTG 630
DP+L VQ P F D I RN DR N +F+ RGLD G + G+
Sbjct: 266 DPDL----FLVQTPHFFINPDPIQRNLALGDRCPPENEMFYGKIHRGLDRWGGAFFCGSA 321
Query: 631 CVFNRTAL 638
V R AL
Sbjct: 322 AVLRRRAL 329
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 35/64 (54%), Gaps = 2/64 (3%)
Query: 770 GWIYGSVTEDILTGFKMHARGWRSIYCMPKRPAFKGSAPINLSDRLNQVLRWALGSVEIL 829
G+ ++TED T ++H+RGW+S+Y R G P + + Q RWA G +++L
Sbjct: 334 GFAGETITEDAETALEIHSRGWKSLYI--DRAMIAGLQPETFASFIQQRGRWATGMMQML 391
Query: 830 FSRH 833
++
Sbjct: 392 LLKN 395
>pdb|1UR6|B Chain B, Nmr Based Structural Model Of The Ubch5b-Cnot4 Complex
Length = 52
Score = 34.3 bits (77), Expect = 0.34, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 3/50 (6%)
Query: 20 CQICGDNVGKTVDGNPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTRY 69
C +C + + +D F C C + +CR C+ R D N CP C+ Y
Sbjct: 3 CPLCMEPL--EIDDINFFPC-TCGYQICRFCWHRIRTDENGLCPACRKPY 49
>pdb|3NG2|A Chain A, Crystal Structure Of The Rnf4 Ring Domain Dimer
pdb|3NG2|B Chain B, Crystal Structure Of The Rnf4 Ring Domain Dimer
Length = 71
Score = 33.1 bits (74), Expect = 0.61, Method: Composition-based stats.
Identities = 16/69 (23%), Positives = 25/69 (36%), Gaps = 1/69 (1%)
Query: 8 GVKSIKNVGGQVCQICGDNVGKTVDGNPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKT 67
G ++ G C IC D + V + C C C K+ N +CP C+
Sbjct: 1 GTTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRK 59
Query: 68 RYKKHKGSP 76
+ + P
Sbjct: 60 KINHKRYHP 68
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 31.6 bits (70), Expect = 1.9, Method: Composition-based stats.
Identities = 15/61 (24%), Positives = 22/61 (36%), Gaps = 1/61 (1%)
Query: 16 GGQVCQICGDNVGKTVDGNPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTRYKKHKGS 75
G C IC D + V + C C C K+ N +CP C+ + +
Sbjct: 6 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKINHKRYH 64
Query: 76 P 76
P
Sbjct: 65 P 65
Score = 31.6 bits (70), Expect = 1.9, Method: Composition-based stats.
Identities = 15/61 (24%), Positives = 22/61 (36%), Gaps = 1/61 (1%)
Query: 16 GGQVCQICGDNVGKTVDGNPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTRYKKHKGS 75
G C IC D + V + C C C K+ N +CP C+ + +
Sbjct: 71 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKINHKRYH 129
Query: 76 P 76
P
Sbjct: 130 P 130
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 31.6 bits (70), Expect = 2.0, Method: Composition-based stats.
Identities = 14/57 (24%), Positives = 21/57 (36%), Gaps = 1/57 (1%)
Query: 20 CQICGDNVGKTVDGNPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTRYKKHKGSP 76
C IC D + V + C C C K+ N +CP C+ + + P
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKINHKRYHP 61
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 30.4 bits (67), Expect = 4.8, Method: Composition-based stats.
Identities = 14/53 (26%), Positives = 20/53 (37%), Gaps = 1/53 (1%)
Query: 16 GGQVCQICGDNVGKTVDGNPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTR 68
G C IC D + V + C C C K+ N +CP C+ +
Sbjct: 14 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKK 65
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By
Brpf2-Phd1 Finger
Length = 88
Score = 30.0 bits (66), Expect = 5.7, Method: Composition-based stats.
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 19 VCQICGDNVGKTVDGNPFVACDVCAFPVCRPCY 51
VC IC D G++ + N + CD+C V + CY
Sbjct: 27 VCSICMD--GESQNSNVILFCDMCNLAVHQECY 57
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 29.6 bits (65), Expect = 7.1, Method: Composition-based stats.
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 7/53 (13%)
Query: 18 QVCQICGDNVGKTVDGNPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTRYK 70
Q+C+IC +N K V P C +C C ++ Q CP C+ K
Sbjct: 27 QLCKICAEN-DKDVKIEP------CGHLMCTSCLTAWQESDGQGCPFCRCEIK 72
>pdb|3V7I|A Chain A, Germicidin Synthase (Gcs) From Streptomyces Coelicolor, A
Type Iii Polyketide Synthase
Length = 413
Score = 29.3 bits (64), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 31/75 (41%), Gaps = 20/75 (26%)
Query: 204 WKERVDG-----------WKMKQEKNVVPMSTGQATSERGGGDIDASTDVLVDDSLLNDE 252
W R+DG W + E V P GGGD+ A+ + LV D +
Sbjct: 59 WAPRIDGIAASTGIESRGWMLPLEAAVAP---------GGGGDLGAAREALVRDGFTEQD 109
Query: 253 ARQPLSRKVPIPSSR 267
A + ++ +P+S+
Sbjct: 110 ANRAIAALKAVPASQ 124
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 29.3 bits (64), Expect = 9.6, Method: Composition-based stats.
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 7/53 (13%)
Query: 18 QVCQICGDNVGKTVDGNPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTRYK 70
Q+C+IC +N K V P C +C C ++ Q CP C+ K
Sbjct: 25 QLCKICAEN-DKDVKIEP------CGHLMCTSCLTSWQESEGQGCPFCRCEIK 70
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
0.318 0.136 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,861,619
Number of Sequences: 62578
Number of extensions: 1087282
Number of successful extensions: 2397
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 2391
Number of HSP's gapped (non-prelim): 24
length of query: 850
length of database: 14,973,337
effective HSP length: 107
effective length of query: 743
effective length of database: 8,277,491
effective search space: 6150175813
effective search space used: 6150175813
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (26.2 bits)