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= 042398
(422 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4AUQ|B Chain B, Structure Of Birc7-Ubch5b-Ub Complex.
pdb|4AUQ|E Chain E, Structure Of Birc7-Ubch5b-Ub Complex
Length = 62
Score = 49.7 bits (117), Expect = 3e-06, Method: Composition-based stats.
Identities = 20/49 (40%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 374 ETQACPICLTNAKDLAF-GCGHMTCRECGSRVSNCPICRQRITNRLRLF 421
E + C +CL A + F CGH+ C EC + CPICR + +R+R F
Sbjct: 12 EERTCKVCLDRAVSIVFVPCGHLVCAECAPGLQLCPICRAPVRSRVRTF 60
>pdb|3EB5|A Chain A, Structure Of The Ciap2 Ring Domain
pdb|3EB6|A Chain A, Structure Of The Ciap2 Ring Domain Bound To Ubch5b
Length = 74
Score = 42.4 bits (98), Expect = 5e-04, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 374 ETQACPICLTNAKDLAF-GCGHMT-CRECGSRVSNCPICRQRITNRLRLF 421
E + C +C+ + F CGH+ C++C + CPICR I +R F
Sbjct: 23 EERTCKVCMDKEVSIVFIPCGHLVVCKDCAPSLRKCPICRSTIKGTVRTF 72
>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 = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 18/50 (36%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 374 ETQACPICLTNAKDLAF-GCGHM-TCRECGSRVSNCPICRQRITNRLRLF 421
E + C IC+ + F CGH+ TC++C V CP+C IT + ++F
Sbjct: 24 EEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMCYTVITFKQKIF 73
>pdb|3T6P|A Chain A, Iap Antagonist-Induced Conformational Change In Ciap1
Promotes E3 Ligase Activation Via Dimerization
Length = 345
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 372 VAETQACPICLTNAKDLAF-GCGHMT-CRECGSRVSNCPICRQRITNRLRLF 421
+ E + C +C+ + F CGH+ C+EC + CPICR I +R F
Sbjct: 292 LQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSLRKCPICRGIIKGTVRTF 343
>pdb|4IC2|A Chain A, Crystal Structure Of The Xiap Ring Domain
pdb|4IC2|B Chain B, Crystal Structure Of The Xiap Ring Domain
Length = 74
Score = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 18/50 (36%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 374 ETQACPICLTNAKDLAF-GCGHM-TCRECGSRVSNCPICRQRITNRLRLF 421
E + C IC+ + F CGH+ TC++C V CP+C IT + ++F
Sbjct: 23 EEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMCYTVITFKQKIF 72
>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 = 38.9 bits (89), Expect = 0.006, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 374 ETQACPICLTNAKDLAF-GCGHM-TCRECGSRVSNCPICRQRITNRLRLF 421
E + C IC+ + F CGH+ TC++C V CP+C IT + ++
Sbjct: 23 EEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMCYTVITFKQKIL 72
>pdb|2YHN|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHN|B Chain B, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|C Chain C, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|E Chain E, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|G Chain G, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
Length = 79
Score = 36.6 bits (83), Expect = 0.024, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 372 VAETQACPICLTNAKDLAF-GCGHMTCRE-CGSRVSNCPICRQRI 414
+ E C +C + F CGH C E C +++ +CP+CR R+
Sbjct: 15 LKEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQLQSCPVCRSRV 59
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 35.8 bits (81), Expect = 0.050, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 8/48 (16%)
Query: 378 CPICLTNAKD-LAFGCGHMTCRECGSRV-------SNCPICRQRITNR 417
CPICL K+ ++ C H+ C+ C ++ S CP+C+ IT R
Sbjct: 24 CPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR 71
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 35.0 bits (79), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 4/48 (8%)
Query: 372 VAETQACPICLTNAKDLAFGCGHMTCREC----GSRVSNCPICRQRIT 415
+ + + C IC+ DL C H C++C R NCPICR ++T
Sbjct: 12 LTDEEECCICMDGRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMT 59
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 34.3 bits (77), Expect = 0.14, Method: Composition-based stats.
Identities = 15/55 (27%), Positives = 27/55 (49%), Gaps = 12/55 (21%)
Query: 375 TQACPICLTNAKDL--------AFGCGHMTCREC----GSRVSNCPICRQRITNR 417
T +CPIC+ ++ + CGH+ C +C + CP CR++I ++
Sbjct: 7 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 61
Score = 34.3 bits (77), Expect = 0.14, Method: Composition-based stats.
Identities = 15/55 (27%), Positives = 27/55 (49%), Gaps = 12/55 (21%)
Query: 375 TQACPICLTNAKDL--------AFGCGHMTCREC----GSRVSNCPICRQRITNR 417
T +CPIC+ ++ + CGH+ C +C + CP CR++I ++
Sbjct: 72 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 126
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 33.9 bits (76), Expect = 0.16, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 26/58 (44%), Gaps = 14/58 (24%)
Query: 366 SRGSTPVAETQACPICLTNAKD-LAFGCGHMTCREC------------GSRVSNCPIC 410
S S V E CPICL + L+ CGH CR C G + S+CP+C
Sbjct: 3 SGSSGNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGK-SSCPVC 59
>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 = 33.9 bits (76), Expect = 0.17, Method: Composition-based stats.
Identities = 15/55 (27%), Positives = 27/55 (49%), Gaps = 12/55 (21%)
Query: 375 TQACPICLTNAKDL--------AFGCGHMTCREC----GSRVSNCPICRQRITNR 417
T +CPIC+ ++ + CGH+ C +C + CP CR++I ++
Sbjct: 10 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 64
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 33.5 bits (75), Expect = 0.24, Method: Composition-based stats.
Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 12/53 (22%)
Query: 377 ACPICLTNAKDL--------AFGCGHMTCRECG----SRVSNCPICRQRITNR 417
+CPIC+ ++ + CGH+ C +C + CP CR++I ++
Sbjct: 5 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 57
>pdb|1WD2|A Chain A, Solution Structure Of The C-Terminal Ring From A Ring-Ibr-
Ring (Triad) Motif
Length = 60
Score = 32.3 bits (72), Expect = 0.46, Method: Composition-based stats.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 3/39 (7%)
Query: 373 AETQACPIC-LTNAKDLAFGCGHMTCRECGSRVSNCPIC 410
A T+ CP C +T KD GC HM CR + C +C
Sbjct: 4 ANTKECPKCHVTIEKD--GGCNHMVCRNQNCKAEFCWVC 40
>pdb|1E4U|A Chain A, N-Terminal Ring Finger Domain Of Human Not-4
Length = 78
Score = 31.2 bits (69), Expect = 1.3, Method: Composition-based stats.
Identities = 19/60 (31%), Positives = 25/60 (41%), Gaps = 14/60 (23%)
Query: 363 RQPSRGSTPVAETQACPICLT--NAKDLAF---GCGHMTCRECGSRVSN-----CPICRQ 412
R P PV CP+C+ D+ F CG+ CR C R+ CP CR+
Sbjct: 3 RSPDAKEDPVE----CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRK 58
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 30.4 bits (67), Expect = 1.8, Method: Composition-based stats.
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 14/61 (22%)
Query: 374 ETQACPICLTN-----AKDLAFGCGHMTCRECGSRV-------SNCPICRQ--RITNRLR 419
E CPIC+ + + CGH CR+C ++ CP C + RIT+ +
Sbjct: 14 EVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITSLTQ 73
Query: 420 L 420
L
Sbjct: 74 L 74
>pdb|1UR6|B Chain B, Nmr Based Structural Model Of The Ubch5b-Cnot4 Complex
Length = 52
Score = 30.0 bits (66), Expect = 2.7, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 10/45 (22%)
Query: 378 CPICLT--NAKDLAF---GCGHMTCRECGSRVSN-----CPICRQ 412
CP+C+ D+ F CG+ CR C R+ CP CR+
Sbjct: 3 CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRK 47
>pdb|1Z5X|E Chain E, Hemipteran Ecdysone Receptor Ligand-Binding Domain
Complexed With Ponasterone A
Length = 310
Score = 28.9 bits (63), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 44/83 (53%), Gaps = 6/83 (7%)
Query: 254 SIVAASSYPL---SIVLVGVGDGPWEDMQKFDDKIPAREFDNFQFVNFTAIMSKNATPSE 310
SI+ A++ P S + G+GD ED+ +F + A + DN ++ TAI+ + PS
Sbjct: 176 SILFATNQPYTRESYTVAGMGDT-VEDLLRFCRHMCAMKVDNAEYALLTAIVIFSERPSL 234
Query: 311 KETAFALAALMEIPIQ-YKAAVE 332
E + + + EI I+ KA VE
Sbjct: 235 SE-GWKVEKIQEIYIEALKAYVE 256
>pdb|1V4Y|A Chain A, The Functional Role Of The Binuclear Metal Center In D-
Aminoacylase. One-Metal Activation And Second-Metal
Attenuation
Length = 496
Score = 28.5 bits (62), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 31/75 (41%), Gaps = 11/75 (14%)
Query: 105 IDFTKSNEWTGKVSFNNRSLHAIGD-TPNPYEKAITIIGKTLAPFDEDNLIPCFGFGDAT 163
ID T + V + A+GD + + + I + GK ++P GF D+
Sbjct: 31 IDGTNAPGRLADVGVRGDRIAAVGDLSASSARRRIDVAGKVVSP----------GFIDSH 80
Query: 164 THDQEVFSFHDDHTP 178
THD H D TP
Sbjct: 81 THDDNYLLKHRDMTP 95
>pdb|1RJQ|A Chain A, The Crystal Structure Of The D-Aminoacylase Mutant D366a
pdb|1RJR|A Chain A, The Crystal Structure Of The D-Aminoacylase D366a Mutant
In Complex With 100mm Zncl2
pdb|1RK5|A Chain A, The D-Aminoacylase Mutant D366a In Complex With 100mm
Cucl2
Length = 496
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 31/75 (41%), Gaps = 11/75 (14%)
Query: 105 IDFTKSNEWTGKVSFNNRSLHAIGD-TPNPYEKAITIIGKTLAPFDEDNLIPCFGFGDAT 163
ID T + V + A+GD + + + I + GK ++P GF D+
Sbjct: 31 IDGTNAPGRLADVGVRGDRIAAVGDLSASSARRRIDVAGKVVSP----------GFIDSH 80
Query: 164 THDQEVFSFHDDHTP 178
THD H D TP
Sbjct: 81 THDDNYLLKHRDMTP 95
>pdb|1RJP|A Chain A, Crystal Structure Of D-Aminoacylase In Complex With 100mm
Cucl2
pdb|1RK6|A Chain A, The Enzyme In Complex With 50mm Cdcl2
pdb|1V51|A Chain A, The Functional Role Of The Binuclear Metal Center In D-
Aminoacylase. One-Metal Activation And Second-Metal
Attenuation
Length = 496
Score = 28.5 bits (62), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 31/75 (41%), Gaps = 11/75 (14%)
Query: 105 IDFTKSNEWTGKVSFNNRSLHAIGD-TPNPYEKAITIIGKTLAPFDEDNLIPCFGFGDAT 163
ID T + V + A+GD + + + I + GK ++P GF D+
Sbjct: 31 IDGTNAPGRLADVGVRGDRIAAVGDLSASSARRRIDVAGKVVSP----------GFIDSH 80
Query: 164 THDQEVFSFHDDHTP 178
THD H D TP
Sbjct: 81 THDDNYLLKHRDMTP 95
>pdb|1M7J|A Chain A, Crystal Structure Of D-Aminoacylase Defines A Novel Subset
Of Amidohydrolases
Length = 484
Score = 28.5 bits (62), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 31/75 (41%), Gaps = 11/75 (14%)
Query: 105 IDFTKSNEWTGKVSFNNRSLHAIGD-TPNPYEKAITIIGKTLAPFDEDNLIPCFGFGDAT 163
ID T + V + A+GD + + + I + GK ++P GF D+
Sbjct: 19 IDGTNAPGRLADVGVRGDRIAAVGDLSASSARRRIDVAGKVVSP----------GFIDSH 68
Query: 164 THDQEVFSFHDDHTP 178
THD H D TP
Sbjct: 69 THDDNYLLKHRDMTP 83
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 0.134 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,547,380
Number of Sequences: 62578
Number of extensions: 414143
Number of successful extensions: 887
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 872
Number of HSP's gapped (non-prelim): 30
length of query: 422
length of database: 14,973,337
effective HSP length: 101
effective length of query: 321
effective length of database: 8,652,959
effective search space: 2777599839
effective search space used: 2777599839
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)