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= psy4370
(191 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1C4Z|A Chain A, Structure Of E6ap: Insights Into Ubiquitination Pathway
pdb|1C4Z|B Chain B, Structure Of E6ap: Insights Into Ubiquitination Pathway
pdb|1C4Z|C Chain C, Structure Of E6ap: Insights Into Ubiquitination Pathway
pdb|1D5F|A Chain A, Structure Of An E6ap-Ubch7 Complex: Insights Into The
Ubiquitination Pathway
pdb|1D5F|B Chain B, Structure Of An E6ap-Ubch7 Complex: Insights Into The
Ubiquitination Pathway
pdb|1D5F|C Chain C, Structure Of An E6ap-Ubch7 Complex: Insights Into The
Ubiquitination Pathway
Length = 358
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 34/64 (53%)
Query: 109 GGSSWDMKTLMECCRIDHGYNHNSKAIKYLFHVLSCYSSPEQRDFLQFVTGSPRLPVGAK 168
G + D + L E D GY +S I+ + ++ ++ ++R FLQF TG+ R PVG
Sbjct: 244 GSRNLDFQALEETTEYDGGYTRDSVLIREFWEIVHSFTDEQKRLFLQFTTGTDRAPVGGL 303
Query: 169 TKCQ 172
K +
Sbjct: 304 GKLK 307
>pdb|3G1N|A Chain A, Catalytic Domain Of The Human E3 Ubiquitin-Protein Ligase
Huwe1
pdb|3G1N|B Chain B, Catalytic Domain Of The Human E3 Ubiquitin-Protein Ligase
Huwe1
Length = 388
Score = 34.7 bits (78), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 24/40 (60%)
Query: 126 HGYNHNSKAIKYLFHVLSCYSSPEQRDFLQFVTGSPRLPV 165
H Y NS I++ + L + ++ FLQFVTG+ ++P+
Sbjct: 283 HKYQSNSIQIQWFWRALRSFDQADRAKFLQFVTGTSKVPL 322
>pdb|3H1D|A Chain A, Structure Of The Huwe1 Hect Domain
Length = 405
Score = 34.7 bits (78), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 24/40 (60%)
Query: 126 HGYNHNSKAIKYLFHVLSCYSSPEQRDFLQFVTGSPRLPV 165
H Y NS I++ + L + ++ FLQFVTG+ ++P+
Sbjct: 300 HKYQSNSIQIQWFWRALRSFDQADRAKFLQFVTGTSKVPL 339
>pdb|1ZVD|A Chain A, Regulation Of Smurf2 Ubiquitin Ligase Activity By
Anchoring The E2 To The Hect Domain
Length = 380
Score = 33.1 bits (74), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 36/81 (44%), Gaps = 10/81 (12%)
Query: 111 SSWDMKTLMECCRIDHGYNHNSKAIKYLFHVLSCYSSPEQRDFLQFVTGSPRLPVGAKTK 170
+ W + T ++ C D S +K+ + + + + LQFVTGS R+P+
Sbjct: 267 NDWKVNTRLKHCTPD------SNIVKWFWKAVEFFDEERRARLLQFVTGSSRVPLQGFKA 320
Query: 171 CQ----PKAITLGLIERLTKN 187
Q P+ T+ I+ T N
Sbjct: 321 LQGAAGPRLFTIHQIDACTNN 341
>pdb|2XBB|A Chain A, Nedd4 Hect:ub Complex
pdb|2XBB|B Chain B, Nedd4 Hect:ub Complex
pdb|2XBF|A Chain A, Nedd4 Hect Structure
Length = 386
Score = 33.1 bits (74), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 29/54 (53%)
Query: 114 DMKTLMECCRIDHGYNHNSKAIKYLFHVLSCYSSPEQRDFLQFVTGSPRLPVGA 167
D+ E + +GY+ N + I++ + + S ++ LQFVTG+ R+P+
Sbjct: 270 DVNDWREHTKYKNGYSANHQVIQWFWKAVLMMDSEKRIRLLQFVTGTSRVPMNG 323
>pdb|3OLM|A Chain A, Structure And Function Of A Ubiquitin Binding Site Within
The Catalytic Domain Of A Hect Ubiquitin Ligase
Length = 429
Score = 32.7 bits (73), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 36/69 (52%), Gaps = 7/69 (10%)
Query: 126 HGYNHNSKAIKYLFHVLSCYSSPEQRDFLQFVTGSPRLPVGAKTKCQ----PKAITL--- 178
GY + + I++ + +S + + ++ LQF TG+ R+PV Q P+ T+
Sbjct: 326 RGYQESDEVIQWFWKCVSEWDNEQRARLLQFTTGTSRIPVNGFKDLQGSDGPRRFTIEKA 385
Query: 179 GLIERLTKN 187
G +++L K+
Sbjct: 386 GEVQQLPKS 394
>pdb|1ND7|A Chain A, Conformational Flexibility Underlies Ubiquitin Ligation
Mediated By The Wwp1 Hect Domain E3 Ligase
Length = 374
Score = 31.2 bits (69), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 22/40 (55%)
Query: 128 YNHNSKAIKYLFHVLSCYSSPEQRDFLQFVTGSPRLPVGA 167
Y NSK I + + + + + LQFVTG+ RLP+G
Sbjct: 278 YTRNSKQIIWFWQFVKETDNEVRMRLLQFVTGTCRLPLGG 317
>pdb|3TUG|A Chain A, Crystal Structure Of The Hect Domain Of Itch E3 Ubiquitin
Ligase
Length = 398
Score = 31.2 bits (69), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 22/40 (55%)
Query: 128 YNHNSKAIKYLFHVLSCYSSPEQRDFLQFVTGSPRLPVGA 167
Y SK I + + + + ++ LQFVTG+ RLPVG
Sbjct: 297 YARTSKQIMWFWQFVKEIDNEKRMRLLQFVTGTCRLPVGG 336
>pdb|2FUG|3 Chain 3, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|C Chain C, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|L Chain L, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|U Chain U, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|3I9V|3 Chain 3, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 2 MolASU
pdb|3I9V|C Chain C, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 2 MolASU
pdb|3IAM|3 Chain 3, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Reduced, 2 MolASU,
WITH BOUND NADH
pdb|3IAM|C Chain C, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Reduced, 2 MolASU,
WITH BOUND NADH
pdb|3IAS|3 Chain 3, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|C Chain C, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|L Chain L, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|U Chain U, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3M9S|3 Chain 3, Crystal Structure Of Respiratory Complex I From Thermus
Thermophilus
pdb|3M9S|C Chain C, Crystal Structure Of Respiratory Complex I From Thermus
Thermophilus
pdb|2YBB|3 Chain 3, Fitted Model For Bovine Mitochondrial Supercomplex
I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
pdb|4HEA|3 Chain 3, Crystal Structure Of The Entire Respiratory Complex I From
Thermus Thermophilus
pdb|4HEA|D Chain D, Crystal Structure Of The Entire Respiratory Complex I From
Thermus Thermophilus
Length = 783
Score = 29.6 bits (65), Expect = 1.1, Method: Composition-based stats.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 2 PLTWEVYEEWPFSRKHMSKQRVMSPF 27
PL VY + F+R+H+ K +SPF
Sbjct: 148 PLELPVYTRFEFTRRHVDKHHPLSPF 173
>pdb|2WU9|A Chain A, Crystal Structure Of Peroxisomal Kat2 From Arabidopsis
Thaliana
pdb|2WU9|B Chain B, Crystal Structure Of Peroxisomal Kat2 From Arabidopsis
Thaliana
Length = 442
Score = 28.1 bits (61), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 19/37 (51%)
Query: 61 WSDGLVPLSRSPLDPYLSDTLPPSVTITDACLPVLTL 97
+ D ++P+ +DP D P +V++ D P TL
Sbjct: 214 FKDEIIPVKTKLVDPKTGDEKPITVSVDDGIRPTTTL 250
>pdb|2C7Y|A Chain A, Plant Enzyme
pdb|2C7Y|B Chain B, Plant Enzyme
pdb|2C7Z|A Chain A, Plant Enzyme Crystal Form Ii
Length = 404
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 19/37 (51%)
Query: 61 WSDGLVPLSRSPLDPYLSDTLPPSVTITDACLPVLTL 97
+ D ++P+ +DP D P +V++ D P TL
Sbjct: 197 FKDEIIPVKTKLVDPKTGDEKPITVSVDDGIRPTTTL 233
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 0.136 0.448
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,851,914
Number of Sequences: 62578
Number of extensions: 213459
Number of successful extensions: 344
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 330
Number of HSP's gapped (non-prelim): 14
length of query: 191
length of database: 14,973,337
effective HSP length: 93
effective length of query: 98
effective length of database: 9,153,583
effective search space: 897051134
effective search space used: 897051134
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: 48 (23.1 bits)