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= 020280
(328 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2A25|A Chain A, Crystal Structure Of Siah1 Sbd Bound To The Peptide
Ekpaavvapittg From Sip
Length = 193
Score = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 38/65 (58%), Gaps = 2/65 (3%)
Query: 138 VLESVKVTCRNSNYGCKVTMSYGKKHDHEKICPHVPCSCPIP--DCNFVGSANHLYKHFS 195
V SV C+ ++ GC++T+ + +K DHE++C P SCP P C + GS + + H
Sbjct: 1 VANSVLFPCKYASSGCEITLPHTEKADHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLM 60
Query: 196 AKHKN 200
+HK+
Sbjct: 61 HQHKS 65
>pdb|1K2F|A Chain A, Siah, Seven In Absentia Homolog
pdb|1K2F|B Chain B, Siah, Seven In Absentia Homolog
Length = 190
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 37/62 (59%), Gaps = 2/62 (3%)
Query: 141 SVKVTCRNSNYGCKVTMSYGKKHDHEKICPHVPCSCPIP--DCNFVGSANHLYKHFSAKH 198
SV C+ ++ GC++T+ + +K +HE++C P SCP P C + GS + + H +H
Sbjct: 1 SVLFPCKYASSGCEITLPHTEKAEHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQH 60
Query: 199 KN 200
K+
Sbjct: 61 KS 62
>pdb|2AN6|A Chain A, Protein-Peptide Complex
pdb|2AN6|B Chain B, Protein-Peptide Complex
pdb|2AN6|C Chain C, Protein-Peptide Complex
pdb|2AN6|D Chain D, Protein-Peptide Complex
Length = 191
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 37/62 (59%), Gaps = 2/62 (3%)
Query: 141 SVKVTCRNSNYGCKVTMSYGKKHDHEKICPHVPCSCPIP--DCNFVGSANHLYKHFSAKH 198
SV C+ ++ GC++T+ + +K +HE++C P SCP P C + GS + + H +H
Sbjct: 2 SVLFPCKYASSGCEITLPHTEKAEHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQH 61
Query: 199 KN 200
K+
Sbjct: 62 KS 63
>pdb|2YRE|A Chain A, Solution Structure Of The Zinc Finger Domains (1-87) From
Human F-Box Only Protein
Length = 100
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 3/53 (5%)
Query: 120 CPSCCTPIGYNRCRAIEKVLES--VKVTCRNSNYGCKVTMSYGKKHDHEKICP 170
CP C + ++ C+A E L +V C NS++GC TM+ K +H ++CP
Sbjct: 40 CPLVCGAV-FHSCKADEHRLLCPFERVPCLNSDFGCPFTMARNKVAEHLEMCP 91
>pdb|2Y43|A Chain A, Rad18 Ubiquitin Ligase Ring Domain Structure
pdb|2Y43|B Chain B, Rad18 Ubiquitin Ligase Ring Domain Structure
Length = 99
Score = 33.1 bits (74), Expect = 0.22, Method: Composition-based stats.
Identities = 19/67 (28%), Positives = 31/67 (46%), Gaps = 4/67 (5%)
Query: 65 LDLAGPSRNGP-FSVTVTDPEVFDCPICYESLTAPVFQCENGHIACSTCCSKIMN---KC 120
+D SR P +V T ++ C IC+E + + H CS C K ++ +C
Sbjct: 1 MDSLAESRWPPGLAVMKTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQC 60
Query: 121 PSCCTPI 127
P+CC +
Sbjct: 61 PTCCVTV 67
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 31.2 bits (69), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 9/66 (13%)
Query: 65 LDLAGPSRNGPFSVTVTDPEVFDCPICYESLTAPV-FQCENGHIACSTCCSKIMN----- 118
+DL+ +V ++ +CPIC E + PV +C+ HI C C K++N
Sbjct: 1 MDLSALRVEEVQNVINAMQKILECPICLELIKEPVSTKCD--HIFCKFCMLKLLNQKKGP 58
Query: 119 -KCPSC 123
+CP C
Sbjct: 59 SQCPLC 64
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 23/51 (45%), Gaps = 13/51 (25%)
Query: 84 EVFDCPICYESLTA-----PVFQCENGHIACSTCCSKIMN------KCPSC 123
EV +CPIC ES T + C GH C C K++ +CP C
Sbjct: 14 EVLECPICMESFTEEQLRPKLLHC--GHTICRQCLEKLLASSINGVRCPFC 62
>pdb|2ECG|A Chain A, Solution Structure Of The Ring Domain Of The Baculoviral
Iap Repeat-Containing Protein 4 From Homo Sapiens
Length = 75
Score = 28.9 bits (63), Expect = 3.7, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 88 CPICYESLTAPVFQCENGHIACSTCCSKIMNKCPSCCTPIGYNR 131
C IC + A VF GH+ C++ ++KCP C T I + +
Sbjct: 28 CKICMDRNIAIVF-VPCGHLVTCKQCAEAVDKCPMCYTVITFKQ 70
>pdb|4IC3|A Chain A, Crystal Structure Of The F495l Mutant Xiap Ring Domain
pdb|4IC3|B Chain B, Crystal Structure Of The F495l Mutant Xiap Ring Domain
Length = 74
Score = 28.9 bits (63), Expect = 3.8, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 88 CPICYESLTAPVFQCENGHIACSTCCSKIMNKCPSCCTPIGYNR 131
C IC + A VF GH+ C++ ++KCP C T I + +
Sbjct: 27 CKICMDRNIAIVF-VPCGHLVTCKQCAEAVDKCPMCYTVITFKQ 69
>pdb|2DAR|A Chain A, Solution Structure Of First Lim Domain Of Enigma-Like Pdz
And Lim Domains Protein
Length = 90
Score = 28.5 bits (62), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 22/52 (42%), Gaps = 3/52 (5%)
Query: 74 GPFSVTV---TDPEVFDCPICYESLTAPVFQCENGHIACSTCCSKIMNKCPS 122
GPF V + PE F+C C ++ F E G + C C K PS
Sbjct: 37 GPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFASGPS 88
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
0.321 0.137 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,596,927
Number of Sequences: 62578
Number of extensions: 365370
Number of successful extensions: 787
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 773
Number of HSP's gapped (non-prelim): 31
length of query: 328
length of database: 14,973,337
effective HSP length: 99
effective length of query: 229
effective length of database: 8,778,115
effective search space: 2010188335
effective search space used: 2010188335
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: 52 (24.6 bits)