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= 031417
(160 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1EUV|A Chain A, X-Ray Structure Of The C-Terminal Ulp1 Protease Domain In
Complex With Smt3, The Yeast Ortholog Of Sumo
Length = 221
Score = 34.7 bits (78), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 6/46 (13%)
Query: 66 LASLDFVLRQEARALFGNRFSFFNFQICCQAGVPQQPNGFDCGYYV 111
L L + +E++ G F + PQQPNG+DCG YV
Sbjct: 145 LTDLQKYVMEESKHTIGEDFDLIHLD------CPQQPNGYDCGIYV 184
>pdb|1TGZ|A Chain A, Structure Of Human Senp2 In Complex With Sumo-1
pdb|1TH0|A Chain A, Structure Of Human Senp2
pdb|1TH0|B Chain B, Structure Of Human Senp2
Length = 226
Score = 31.2 bits (69), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 15/22 (68%)
Query: 98 VPQQPNGFDCGYYVMKYMDNLS 119
+PQQ NG DCG + KY D +S
Sbjct: 176 IPQQLNGSDCGMFTCKYADYIS 197
>pdb|2HKP|A Chain A, Sumo Protease Ulp1 With The Catalytic Cysteine Oxidized To
A Sulfenic Acid
pdb|2HL8|A Chain A, Sumo Protease Ulp1 With The Catalytic Cysteine Oxidized To
A Sulfinic Acid
pdb|2HL9|A Chain A, Sumo Protease Ulp1 With The Catalytic Cysteine Oxidized To
A Sulfonic Acid
Length = 221
Score = 30.8 bits (68), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 6/46 (13%)
Query: 66 LASLDFVLRQEARALFGNRFSFFNFQICCQAGVPQQPNGFDCGYYV 111
L L + +E++ G F + C PQQPNG+D G YV
Sbjct: 145 LTDLQKYVMEESKHTIGEDFDLIHLD--C----PQQPNGYDXGIYV 184
>pdb|2CKG|A Chain A, The Structure Of Senp1 Sumo-2 Co-Complex Suggests A
Structural Basis For Discrimination Between Sumo
Paralogues During Processing
pdb|2CKG|B Chain B, The Structure Of Senp1 Sumo-2 Co-Complex Suggests A
Structural Basis For Discrimination Between Sumo
Paralogues During Processing
pdb|2CKH|A Chain A, Senp1-sumo2 Complex
Length = 225
Score = 30.8 bits (68), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 95 QAGVPQQPNGFDCGYYVMKYMDNLS 119
++ +PQQ NG DCG + KY D ++
Sbjct: 172 KSQIPQQMNGSDCGMFACKYADCIT 196
>pdb|2IYC|A Chain A, Senp1 Native Structure
pdb|2IYC|B Chain B, Senp1 Native Structure
pdb|2IYD|A Chain A, Senp1 Covalent Complex With Sumo-2
Length = 226
Score = 30.0 bits (66), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 98 VPQQPNGFDCGYYVMKYMDNLS 119
+PQQ NG DCG + KY D ++
Sbjct: 176 IPQQMNGSDCGMFACKYADCIT 197
>pdb|2XRE|A Chain A, Detection Of Cobalt In Previously Unassigned Human Senp1
Structure
pdb|2XRE|B Chain B, Detection Of Cobalt In Previously Unassigned Human Senp1
Structure
Length = 230
Score = 30.0 bits (66), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 98 VPQQPNGFDCGYYVMKYMDNLS 119
+PQQ NG DCG + KY D ++
Sbjct: 180 IPQQMNGSDCGMFACKYADCIT 201
>pdb|2XPH|A Chain A, Crystal Structure Of Human Senp1 With The Bound Cobalt
pdb|2XPH|B Chain B, Crystal Structure Of Human Senp1 With The Bound Cobalt
Length = 238
Score = 30.0 bits (66), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 98 VPQQPNGFDCGYYVMKYMDNLS 119
+PQQ NG DCG + KY D ++
Sbjct: 188 IPQQMNGSDCGMFACKYADCIT 209
>pdb|3EAY|A Chain A, Crystal Structure Of The Human Senp7 Catalytic Domain
Length = 323
Score = 30.0 bits (66), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 76 EARALFGNRFSFFNFQICCQAGVPQQPNGFDCGYYVMKYMDN 117
E + +FS N C VP+Q N DCG Y+++Y+++
Sbjct: 235 EVKLKTHRQFSKTNMVDLC-PKVPKQDNSSDCGVYLLQYVES 275
>pdb|2O8E|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO A G T MISPAIR, WITH
ADP BOUND TO Msh2 Only
Length = 934
Score = 29.3 bits (64), Expect = 0.95, Method: Composition-based stats.
Identities = 29/103 (28%), Positives = 46/103 (44%), Gaps = 16/103 (15%)
Query: 53 RDRYMGRLDTCEKLASLDFVLRQEARALFGNRFSFFN-----FQICCQAGVPQQPNGFDC 107
++R RL+ E D LRQ + RF N FQ Q N DC
Sbjct: 353 KNRIEERLNLVEAFVE-DAELRQTLQEDLLRRFPDLNRLAKKFQ-------RQAANLQDC 404
Query: 108 GYYVMKYMDNLSIVVHDSYQHDSDHARLLLALYLVQSPLNKIR 150
Y + + ++ L V+ +H+ H +LLLA+++ +PL +R
Sbjct: 405 -YRLYQGINQLPNVIQALEKHEGKHQKLLLAVFV--TPLTDLR 444
>pdb|2O8B|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO ADP AND A G T MISPAIR
pdb|2O8C|A Chain A, Human Mutsalpha (msh2/msh6) Bound To Adp And An
O6-methyl-guanine T Mispair
pdb|2O8D|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO ADP AND A G DU MISPAIR
pdb|2O8F|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO DNA WITH A SINGLE BASE
T INSERT
pdb|3THW|A Chain A, Human Mutsbeta Complexed With An Idl Of 4 Bases (Loop4)
And Adp
pdb|3THX|A Chain A, Human Mutsbeta Complexed With An Idl Of 3 Bases (Loop3)
And Adp
pdb|3THY|A Chain A, Human Mutsbeta Complexed With An Idl Of 2 Bases (Loop2)
And Adp
pdb|3THZ|A Chain A, Human Mutsbeta Complexed With An Idl Of 6 Bases (Loop6)
And Adp
Length = 934
Score = 29.3 bits (64), Expect = 0.95, Method: Composition-based stats.
Identities = 29/103 (28%), Positives = 46/103 (44%), Gaps = 16/103 (15%)
Query: 53 RDRYMGRLDTCEKLASLDFVLRQEARALFGNRFSFFN-----FQICCQAGVPQQPNGFDC 107
++R RL+ E D LRQ + RF N FQ Q N DC
Sbjct: 353 KNRIEERLNLVEAFVE-DAELRQTLQEDLLRRFPDLNRLAKKFQ-------RQAANLQDC 404
Query: 108 GYYVMKYMDNLSIVVHDSYQHDSDHARLLLALYLVQSPLNKIR 150
Y + + ++ L V+ +H+ H +LLLA+++ +PL +R
Sbjct: 405 -YRLYQGINQLPNVIQALEKHEGKHQKLLLAVFV--TPLTDLR 444
>pdb|2AAM|A Chain A, Crystal Structure Of A Putative Glycosidase (Tm1410) From
Thermotoga Maritima At 2.20 A Resolution
pdb|2AAM|B Chain B, Crystal Structure Of A Putative Glycosidase (Tm1410) From
Thermotoga Maritima At 2.20 A Resolution
pdb|2AAM|C Chain C, Crystal Structure Of A Putative Glycosidase (Tm1410) From
Thermotoga Maritima At 2.20 A Resolution
pdb|2AAM|D Chain D, Crystal Structure Of A Putative Glycosidase (Tm1410) From
Thermotoga Maritima At 2.20 A Resolution
pdb|2AAM|E Chain E, Crystal Structure Of A Putative Glycosidase (Tm1410) From
Thermotoga Maritima At 2.20 A Resolution
pdb|2AAM|F Chain F, Crystal Structure Of A Putative Glycosidase (Tm1410) From
Thermotoga Maritima At 2.20 A Resolution
Length = 309
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 2/69 (2%)
Query: 11 YKNMKE--AEKDVTSPRCWFLPTYYSQAALADWSSLNFAQAAGFRDRYMGRLDTCEKLAS 68
Y N E E+D P +F+ +Y++ +S L+ GF+ Y+ R+D+ E A
Sbjct: 93 YTNTPEWLGEEDPAWPGNYFVKYWYNEWKEIVFSYLDRVIDQGFKGIYLDRIDSFEYWAQ 152
Query: 69 LDFVLRQEA 77
+ R+ A
Sbjct: 153 EGVISRRSA 161
>pdb|3Q8G|A Chain A, Resurrection Of A Functional Phosphatidylinositol Transfer
Protein From A Pseudo-Sec14 Scaffold By Directed
Evolution
Length = 320
Score = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 1/61 (1%)
Query: 6 TMYADYKNMKEAEKDVTSPRCWFLPTYYSQAALADWSSLNFAQAAGFRDRYMGRLDTCEK 65
T+ DY+N KEAE P YY D L FA+ G + M ++ T ++
Sbjct: 96 TIIEDYENNKEAEDKERIKLAKMYPQYYHHVD-KDGRPLYFAELGGINLKKMYKITTEKQ 154
Query: 66 L 66
+
Sbjct: 155 M 155
>pdb|2IO0|A Chain A, Crystal Structure Of Human Senp2 In Complex With Presumo-2
pdb|2IO1|A Chain A, Crystal Structure Of Human Senp2 In Complex With Presumo-3
pdb|2IO1|C Chain C, Crystal Structure Of Human Senp2 In Complex With Presumo-3
pdb|2IO1|E Chain E, Crystal Structure Of Human Senp2 In Complex With Presumo-3
pdb|2IO2|A Chain A, Crystal Structure Of Human Senp2 In Complex With
Rangap1-sumo-1
pdb|2IO3|A Chain A, Crystal Structure Of Human Senp2 In Complex With Rangap1-
Sumo-2
Length = 232
Score = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 98 VPQQPNGFDCGYYVMKYMDNLS 119
+PQQ NG D G + KY D +S
Sbjct: 182 IPQQLNGSDSGMFTCKYADYIS 203
>pdb|2IY0|A Chain A, Senp1 (Mutant) Sumo1 Rangap
pdb|2IY1|A Chain A, Senp1 (Mutant) Full Length Sumo1
pdb|2IY1|C Chain C, Senp1 (Mutant) Full Length Sumo1
Length = 226
Score = 26.6 bits (57), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 98 VPQQPNGFDCGYYVMKYMDNLS 119
+PQQ NG D G + KY D ++
Sbjct: 176 IPQQMNGSDAGMFACKYADCIT 197
>pdb|2G4D|A Chain A, Crystal Structure Of Human Senp1 Mutant (C603s) In Complex
With Sumo-1
pdb|2G4D|C Chain C, Crystal Structure Of Human Senp1 Mutant (C603s) In Complex
With Sumo-1
Length = 205
Score = 26.6 bits (57), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 98 VPQQPNGFDCGYYVMKYMDNLS 119
+PQQ NG D G + KY D ++
Sbjct: 155 IPQQMNGSDSGMFACKYADCIT 176
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
0.328 0.138 0.434
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,506,616
Number of Sequences: 62578
Number of extensions: 164983
Number of successful extensions: 384
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 372
Number of HSP's gapped (non-prelim): 15
length of query: 160
length of database: 14,973,337
effective HSP length: 91
effective length of query: 69
effective length of database: 9,278,739
effective search space: 640232991
effective search space used: 640232991
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 47 (22.7 bits)