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= 008581
(561 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WD2|A Chain A, Solution Structure Of The C-Terminal Ring From A Ring-Ibr-
Ring (Triad) Motif
Length = 60
Score = 68.6 bits (166), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 34/60 (56%), Positives = 39/60 (65%), Gaps = 4/60 (6%)
Query: 287 WILANSKPCPKCKRPIEKNQGCMHMTC-SPPCKFEFCWLCLGAWSDHGERTGGFYACNRY 345
WI AN+K CPKC IEK+ GC HM C + CK EFCW+CLG W HG +Y CNRY
Sbjct: 1 WIAANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHGS---AWYNCNRY 57
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 36.6 bits (83), Expect = 0.038, Method: Composition-based stats.
Identities = 23/54 (42%), Positives = 28/54 (51%), Gaps = 10/54 (18%)
Query: 140 ELTCGICFDTYSCDKVVSAACGHPFCRACWRVN-------DGPG-CLMLRCPDP 185
E+TC IC + + VSA C H FCRAC +N DG G C + R P P
Sbjct: 19 EVTCPICLELLK--EPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYP 70
>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 = 31.2 bits (69), Expect = 1.4, Method: Composition-based stats.
Identities = 14/33 (42%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 140 ELTCGICFDTYSCDKVVSAACGHPFCRACWRVN 172
E+TC IC + + + +S CGH FC+AC N
Sbjct: 19 EVTCPICLELLT--QPLSLDCGHSFCQACLTAN 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 = 31.2 bits (69), Expect = 1.6, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 21/47 (44%), Gaps = 10/47 (21%)
Query: 141 LTCGICFDTYS-----CDKVVSAACGHPFCRACWR-----VNDGPGC 177
++C IC D YS +VS CGH FC C R N P C
Sbjct: 11 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTC 57
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 31.2 bits (69), Expect = 1.6, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 19/44 (43%), Gaps = 2/44 (4%)
Query: 140 ELTCGICFDTYSCDKVVSAACGHPFCRACWRVNDGPGCLMLRCP 183
E+ C IC D K V+ CGH FC C C +CP
Sbjct: 20 EVICPICLDILQ--KPVTIDCGHNFCLKCITQIGETSCGFFKCP 61
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 30.8 bits (68), Expect = 2.1, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 19/44 (43%), Gaps = 2/44 (4%)
Query: 140 ELTCGICFDTYSCDKVVSAACGHPFCRACWRVNDGPGCLMLRCP 183
E+ C IC D K V+ CGH FC C C +CP
Sbjct: 20 EVICPICLDILQ--KPVTIDCGHNFCLKCITQIGETSCGFFKCP 61
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 30.8 bits (68), Expect = 2.1, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 21/47 (44%), Gaps = 10/47 (21%)
Query: 141 LTCGICFDTYS-----CDKVVSAACGHPFCRACWR-----VNDGPGC 177
++C IC D YS +VS CGH FC C R N P C
Sbjct: 8 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTC 54
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 30.8 bits (68), Expect = 2.3, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 21/34 (61%), Gaps = 2/34 (5%)
Query: 140 ELTCGICFDTYSCDKVVSAACGHPFCRACWRVND 173
E+TC IC + + + +S CGH CRAC V++
Sbjct: 12 EVTCPICLELLT--EPLSLDCGHSLCRACITVSN 43
>pdb|2VI0|A Chain A, Lichenase Ctlic26 In Complex With A Thio-Oligosaccharide
Length = 282
Score = 30.8 bits (68), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 41/89 (46%), Gaps = 13/89 (14%)
Query: 103 YNWSVSKVHDAWFADEDAV----RKSVGFLDKPVV--EFSNA-------RELTCGICFDT 149
YNW ++ + + D V +++ ++KP++ EF++A R +T
Sbjct: 185 YNWGTTQSWGSQWQSFDQVFSRAYQALASINKPIIIAEFASAEIGGNKARWITEAYNSIR 244
Query: 150 YSCDKVVSAACGHPFCRACWRVNDGPGCL 178
S +KV++A H WR+N PG L
Sbjct: 245 TSYNKVIAAVWFHENKETDWRINSSPGAL 273
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 30.4 bits (67), Expect = 2.6, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 21/47 (44%), Gaps = 10/47 (21%)
Query: 141 LTCGICFDTYS-----CDKVVSAACGHPFCRACWR-----VNDGPGC 177
++C IC D YS +VS CGH FC C R N P C
Sbjct: 4 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTC 50
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 30.0 bits (66), Expect = 3.6, Method: Composition-based stats.
Identities = 15/35 (42%), Positives = 18/35 (51%), Gaps = 5/35 (14%)
Query: 141 LTCGICFDTYS-----CDKVVSAACGHPFCRACWR 170
++C IC D YS +VS CGH FC C R
Sbjct: 16 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLR 50
>pdb|2O6M|A Chain A, H98q Mutant Of The Homing Endonuclease I-ppoi Complexed
With Dna
pdb|2O6M|B Chain B, H98q Mutant Of The Homing Endonuclease I-ppoi Complexed
With Dna
Length = 163
Score = 29.3 bits (64), Expect = 5.6, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Query: 217 VEDNRKTKWCPAP--GCEHAI 235
++DN+ WCP P GC HA+
Sbjct: 116 LDDNKGRNWCPGPNGGCVHAV 136
>pdb|1CYQ|A Chain A, Intron Encoded Homing Endonuclease I-Ppoi (H98a)DNA HOMING
Site Complex
pdb|1CYQ|B Chain B, Intron Encoded Homing Endonuclease I-Ppoi (H98a)DNA HOMING
Site Complex
Length = 162
Score = 29.3 bits (64), Expect = 5.7, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Query: 217 VEDNRKTKWCPAP--GCEHAI 235
++DN+ WCP P GC HA+
Sbjct: 115 LDDNKGRNWCPGPNGGCVHAV 135
>pdb|1A74|A Chain A, I-Ppol Homing EndonucleaseDNA COMPLEX
pdb|1A74|B Chain B, I-Ppol Homing EndonucleaseDNA COMPLEX
pdb|1IPP|A Chain A, Homing EndonucleaseDNA COMPLEX
pdb|1IPP|B Chain B, Homing EndonucleaseDNA COMPLEX
pdb|1A73|A Chain A, Intron-Encoded Endonuclease I-Ppoi Complexed With Dna
pdb|1A73|B Chain B, Intron-Encoded Endonuclease I-Ppoi Complexed With Dna
Length = 163
Score = 29.3 bits (64), Expect = 5.7, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Query: 217 VEDNRKTKWCPAP--GCEHAI 235
++DN+ WCP P GC HA+
Sbjct: 116 LDDNKGRNWCPGPNGGCVHAV 136
>pdb|1CZ0|A Chain A, Intron Encoded Homing Endonuclease I-PpoiDNA COMPLEX
Lacking Catalytic Metal Ion
pdb|1CZ0|B Chain B, Intron Encoded Homing Endonuclease I-PpoiDNA COMPLEX
Lacking Catalytic Metal Ion
pdb|1EVX|A Chain A, Apo Crystal Structure Of The Homing Endonuclease, I-Ppoi
pdb|1EVX|B Chain B, Apo Crystal Structure Of The Homing Endonuclease, I-Ppoi
Length = 162
Score = 29.3 bits (64), Expect = 5.9, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Query: 217 VEDNRKTKWCPAP--GCEHAI 235
++DN+ WCP P GC HA+
Sbjct: 115 LDDNKGRNWCPGPNGGCVHAV 135
>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 = 29.3 bits (64), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 25/53 (47%), Gaps = 6/53 (11%)
Query: 141 LTCGICFDTYSCDKVVSAACGHPFCRACWRVNDGPGCLMLRCPDPSCCAAVGQ 193
L CGICF+ ++ ++ C H +C C R L + P+CC V +
Sbjct: 23 LRCGICFEYFNIAMII-PQCSHNYCSLCIR-----KFLSYKTQCPTCCVTVTE 69
>pdb|3VGO|A Chain A, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
pdb|3VGO|B Chain B, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
pdb|3VGO|C Chain C, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
Length = 394
Score = 28.9 bits (63), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 22/44 (50%), Gaps = 7/44 (15%)
Query: 143 CGICFDTYSCDKVVSA-ACGHPFCRAC---WRVNDGPGCLMLRC 182
C IC + DK V CGH C +C W+ +DG GC RC
Sbjct: 341 CKICAEN---DKDVKIEPCGHLMCTSCLTAWQESDGQGCPFCRC 381
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 0.133 0.435
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,190,796
Number of Sequences: 62578
Number of extensions: 659242
Number of successful extensions: 1350
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 1334
Number of HSP's gapped (non-prelim): 41
length of query: 561
length of database: 14,973,337
effective HSP length: 104
effective length of query: 457
effective length of database: 8,465,225
effective search space: 3868607825
effective search space used: 3868607825
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)