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= 026366
(239 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3T6P|A Chain A, Iap Antagonist-Induced Conformational Change In Ciap1
Promotes E3 Ligase Activation Via Dimerization
Length = 345
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 43/75 (57%), Gaps = 5/75 (6%)
Query: 170 NLNYLSVVDGSGNSSPMKMQMI-----CRACNIQEVSILLLPCRHLCLCKDCEGLIGVCP 224
N+ Y+ D SG S +++ + C+ C +EVS++ +PC HL +C++C + CP
Sbjct: 271 NMKYIPTEDVSGLSLEEQLRRLQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSLRKCP 330
Query: 225 VCKAMRTASVEVYLS 239
+C+ + +V +LS
Sbjct: 331 ICRGIIKGTVRTFLS 345
>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 = 51.2 bits (121), Expect = 4e-07, Method: Composition-based stats.
Identities = 20/54 (37%), Positives = 34/54 (62%)
Query: 186 MKMQMICRACNIQEVSILLLPCRHLCLCKDCEGLIGVCPVCKAMRTASVEVYLS 239
++ + C+ C +EVSI+ +PC HL +CKDC + CP+C++ +V +LS
Sbjct: 21 LQEERTCKVCMDKEVSIVFIPCGHLVVCKDCAPSLRKCPICRSTIKGTVRTFLS 74
>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 = 41.6 bits (96), Expect = 3e-04, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 32/54 (59%)
Query: 186 MKMQMICRACNIQEVSILLLPCRHLCLCKDCEGLIGVCPVCKAMRTASVEVYLS 239
++ + +C+ C + ++I+ +PC HL CK C + CP+C + T ++++S
Sbjct: 22 LQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMCYTVITFKQKIFMS 75
>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 = 41.2 bits (95), Expect = 4e-04, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 33/54 (61%), Gaps = 1/54 (1%)
Query: 186 MKMQMICRACNIQEVSILLLPCRHLCLCKDCEGLIGVCPVCKAMRTASVEVYLS 239
++ + C+ C + VSI+ +PC HL +C +C + +CP+C+A + V +LS
Sbjct: 10 LQEERTCKVCLDRAVSIVFVPCGHL-VCAECAPGLQLCPICRAPVRSRVRTFLS 62
>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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 29/49 (59%)
Query: 191 ICRACNIQEVSILLLPCRHLCLCKDCEGLIGVCPVCKAMRTASVEVYLS 239
+C+ C + ++I+ +PC HL CK C + CP+C + T ++++S
Sbjct: 26 LCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMCYTVITFKQKIFMS 74
>pdb|2EA5|A Chain A, Solution Structure Of The Ring Domain Of The Human Cell
Growth Regulator With Ring Finger Domain 1 Protein
Length = 68
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 20/38 (52%)
Query: 192 CRACNIQEVSILLLPCRHLCLCKDCEGLIGVCPVCKAM 229
C C V+ +LLPCRH CLC C CP+C+
Sbjct: 18 CVVCQNGTVNWVLLPCRHTCLCDGCVKYFQQCPMCRQF 55
>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 = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 28/49 (57%)
Query: 191 ICRACNIQEVSILLLPCRHLCLCKDCEGLIGVCPVCKAMRTASVEVYLS 239
+C+ C + ++I+ +PC HL CK C + CP+C + T ++ +S
Sbjct: 26 LCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMCYTVITFKQKILMS 74
>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 = 33.5 bits (75), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 26/53 (49%)
Query: 186 MKMQMICRACNIQEVSILLLPCRHLCLCKDCEGLIGVCPVCKAMRTASVEVYL 238
+K M+C C +E++ PC H C+ C + CPVC++ VYL
Sbjct: 15 LKEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQLQSCPVCRSRVEHVQHVYL 67
>pdb|3APZ|A Chain A, Apo Form Of Arabidopsis MediumLONG-Chain Length Prenyl
Pyrophosphate Synthase
pdb|3APZ|B Chain B, Apo Form Of Arabidopsis MediumLONG-Chain Length Prenyl
Pyrophosphate Synthase
Length = 348
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 33/74 (44%), Gaps = 7/74 (9%)
Query: 151 LHVKEGCGDSEVDDAASRTNLNYLSVVDGSGNSSPMKMQMICRAC-------NIQEVSIL 203
+HV D +DDA +R + L+VV G+ S ++ RAC N + V++L
Sbjct: 99 IHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALL 158
Query: 204 LLPCRHLCLCKDCE 217
HL + E
Sbjct: 159 ATAVEHLVTGETME 172
>pdb|3AQ0|A Chain A, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|B Chain B, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|C Chain C, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|D Chain D, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|E Chain E, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|F Chain F, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|G Chain G, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|H Chain H, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
Length = 348
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 33/74 (44%), Gaps = 7/74 (9%)
Query: 151 LHVKEGCGDSEVDDAASRTNLNYLSVVDGSGNSSPMKMQMICRAC-------NIQEVSIL 203
+HV D +DDA +R + L+VV G+ S ++ RAC N + V++L
Sbjct: 99 IHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALL 158
Query: 204 LLPCRHLCLCKDCE 217
HL + E
Sbjct: 159 ATAVEHLVTGETME 172
>pdb|1WTD|A Chain A, Crystal Structure Of Type Ii Restrcition Endonuclease,
Ecoo109i Dna- Free Form
pdb|1WTD|B Chain B, Crystal Structure Of Type Ii Restrcition Endonuclease,
Ecoo109i Dna- Free Form
pdb|1WTE|A Chain A, Crystal Structure Of Type Ii Restrcition Endonuclease,
Ecoo109i Complexed With Cognate Dna
pdb|1WTE|B Chain B, Crystal Structure Of Type Ii Restrcition Endonuclease,
Ecoo109i Complexed With Cognate Dna
Length = 272
Score = 28.1 bits (61), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 19/32 (59%), Gaps = 8/32 (25%)
Query: 106 KNKELVEKIKQVSMEVQSWHYKAKYNESVVNA 137
KNK+L+EK K+ H KYNE V+NA
Sbjct: 234 KNKDLIEKFKE--------HVAKKYNEQVLNA 257
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
0.316 0.131 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,609,705
Number of Sequences: 62578
Number of extensions: 248533
Number of successful extensions: 743
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 729
Number of HSP's gapped (non-prelim): 20
length of query: 239
length of database: 14,973,337
effective HSP length: 96
effective length of query: 143
effective length of database: 8,965,849
effective search space: 1282116407
effective search space used: 1282116407
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)