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= 027227
(226 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1CHC|A Chain A, Structure Of The C3hc4 Domain By 1h-Nuclear Magnetic
Resonance Spectroscopy; A New Structural Class Of Zinc-
Finger
Length = 68
Score = 42.4 bits (98), Expect = 2e-04, Method: Composition-based stats.
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 166 CPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 210
CPIC P+ +ALPC H +CY C+ +P+ C C PV
Sbjct: 8 CPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPT--CPLCKVPV 50
>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 146
Length = 71
Score = 33.9 bits (76), Expect = 0.084, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 163 VTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 210
V C IC + P ++LPC+H +CY C++ A+ RC+ C + +
Sbjct: 15 VPECAICLQTCVHP-VSLPCKHVFCYLCVKG--ASWLGKRCALCRQEI 59
>pdb|3KRG|A Chain A, Structural Insights Into Substrate Specificity And The
Anti Beta-Elimination Mechanism Of Pectate Lyase
Length = 399
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 75 KAASFGNLLIFLYTGRYRNLIERALRARL 103
K + G L I L+ RY+N+++RA R R
Sbjct: 257 KTSDDGKLKITLHHNRYKNIVQRAPRVRF 285
>pdb|1BN8|A Chain A, Bacillus Subtilis Pectate Lyase
Length = 420
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 75 KAASFGNLLIFLYTGRYRNLIERALRARL 103
K + G L I L+ RY+N+++RA R R
Sbjct: 278 KTSDDGKLKITLHHNRYKNIVQRAPRVRF 306
>pdb|2Y9Z|A Chain A, Chromatin Remodeling Factor Isw1a(Del_atpase) In Dna
Complex
Length = 374
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 37/75 (49%), Gaps = 3/75 (4%)
Query: 4 LWKQEQKVRTGLEGPGLTNAQKIWY-CIATVGGQYLWARLQSFSAFRRWGDS--EQRPLA 60
L ++E+K++ E G TN K+ + TV G+Y +Q+ + G + E R A
Sbjct: 107 LTEEEEKMKADWESEGFTNWNKLEFRKFITVSGKYGRNSIQAIARELAPGKTLEEVRAYA 166
Query: 61 RRAWILIQRIEALYK 75
+ W I+RIE K
Sbjct: 167 KAFWSNIERIEDYEK 181
>pdb|2Y9Y|A Chain A, Chromatin Remodeling Factor Isw1a(Del_atpase)
Length = 374
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 37/75 (49%), Gaps = 3/75 (4%)
Query: 4 LWKQEQKVRTGLEGPGLTNAQKIWY-CIATVGGQYLWARLQSFSAFRRWGDS--EQRPLA 60
L ++E+K++ E G TN K+ + TV G+Y +Q+ + G + E R A
Sbjct: 107 LTEEEEKMKADWESEGFTNWNKLEFRKFITVSGKYGRNSIQAIARELAPGKTLEEVRAYA 166
Query: 61 RRAWILIQRIEALYK 75
+ W I+RIE K
Sbjct: 167 KAFWSNIERIEDYEK 181
>pdb|2YUR|A Chain A, Solution Structure Of The Ring Finger Of Human
Retinoblastoma-Binding Protein 6
Length = 74
Score = 28.9 bits (63), Expect = 2.2, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 19/43 (44%)
Query: 166 CPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNE 208
C IC+ T + C + YC C+RT S C C++
Sbjct: 18 CLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQ 60
>pdb|2ECV|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Tripartite Motif-Containing Protein 5
Length = 85
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 164 TTCPICQASPTTPFLALPCQHRYCYYCL 191
TCPIC T P L+L C H +C CL
Sbjct: 20 VTCPICLELLTQP-LSLDCGHSFCQACL 46
>pdb|2ECY|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger)" Domain Of Tnf Receptor-Associated Factor 3
Length = 66
Score = 27.3 bits (59), Expect = 7.3, Method: Composition-based stats.
Identities = 10/30 (33%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 182 CQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211
C HR+C C+ ++S S +C+ C E ++
Sbjct: 33 CGHRFCESCMAALLSSS-SPKCTACQESIV 61
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
0.326 0.137 0.450
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,930,504
Number of Sequences: 62578
Number of extensions: 197435
Number of successful extensions: 341
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 335
Number of HSP's gapped (non-prelim): 17
length of query: 226
length of database: 14,973,337
effective HSP length: 95
effective length of query: 131
effective length of database: 9,028,427
effective search space: 1182723937
effective search space used: 1182723937
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 50 (23.9 bits)