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= 000550
(1431 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2F1X|A Chain A, Crystal Structure Of The Traf-Like Domain Of HauspUSP7
Bound To A P53 Peptide
pdb|2F1X|B Chain B, Crystal Structure Of The Traf-Like Domain Of HauspUSP7
Bound To A P53 Peptide
Length = 161
Score = 53.5 bits (127), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 35/137 (25%), Positives = 65/137 (47%), Gaps = 13/137 (9%)
Query: 428 FTWRIENFTRLKDLLKKRKITGLCIKSRRFQIGNRDCRLIVYPRGQSQPPCHLSV-FLEV 486
F + +E F+RL + + ++ C + N +++V PR P SV F
Sbjct: 23 FQFTVERFSRLSESV----LSPPCF------VRNLPWKIMVMPRFYPDRPHQKSVGFFLQ 72
Query: 487 MDSRNTSSDWSCFVSHRLSVVNQKMEEKSVTKESQNRYSKAAKDWGWREFVTLTSLFDQD 546
++ + S+ WSC L ++N + +EKS ++ + + DWG+ F+ + + D +
Sbjct: 73 CNAESDSTSWSCHAQAVLKIINYRDDEKSFSRRISHLFFHKENDWGFSNFMAWSEVTDPE 132
Query: 547 SGFLVQDTVVFSAEVLI 563
GF+ D V F EV +
Sbjct: 133 KGFIDDDKVTF--EVFV 147
Score = 39.7 bits (91), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 40/150 (26%), Positives = 64/150 (42%), Gaps = 13/150 (8%)
Query: 79 AQESVAVDRRGEHSAVCRWTVHNFPRIRARALWSKYFEVGGYDCRLLV----YPKGDSQA 134
A+E + D A ++TV F R+ L F V +++V YP Q
Sbjct: 7 AEEDMEDDTSWRSEATFQFTVERFSRLSESVLSPPCF-VRNLPWKIMVMPRFYPDRPHQK 65
Query: 135 LPGYISIYLQIMDPRGTSSSKWDCFASYRLAIVNLSDESKTIHRDSWHRFSSKKKSHGWC 194
G+ +LQ + S+ W C A L I+N D+ K+ R H F K+ G+
Sbjct: 66 SVGF---FLQCN--AESDSTSWSCHAQAVLKIINYRDDEKSFSRRISHLFFHKENDWGFS 120
Query: 195 DFTPSSTVFDSKLGYLFNNDA---VLITAD 221
+F S V D + G++ ++ V + AD
Sbjct: 121 NFMAWSEVTDPEKGFIDDDKVTFEVFVQAD 150
>pdb|2F1Z|A Chain A, Crystal Structure Of Hausp
pdb|2F1Z|B Chain B, Crystal Structure Of Hausp
Length = 522
Score = 53.1 bits (126), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 34/135 (25%), Positives = 63/135 (46%), Gaps = 11/135 (8%)
Query: 428 FTWRIENFTRLKDLLKKRKITGLCIKSRRFQIGNRDCRLIVYPRGQSQPPCHLSV-FLEV 486
F + +E F+RL + + ++ C + N +++V PR P SV F
Sbjct: 33 FQFTVERFSRLSESV----LSPPCF------VRNLPWKIMVMPRFYPDRPHQKSVGFFLQ 82
Query: 487 MDSRNTSSDWSCFVSHRLSVVNQKMEEKSVTKESQNRYSKAAKDWGWREFVTLTSLFDQD 546
++ + S+ WSC L ++N + +EKS ++ + + DWG+ F+ + + D +
Sbjct: 83 CNAESDSTSWSCHAQAVLKIINYRDDEKSFSRRISHLFFHKENDWGFSNFMAWSEVTDPE 142
Query: 547 SGFLVQDTVVFSAEV 561
GF+ D V F V
Sbjct: 143 KGFIDDDKVTFEVFV 157
Score = 45.1 bits (105), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 39/151 (25%), Positives = 64/151 (42%), Gaps = 5/151 (3%)
Query: 74 DGSGGAQESVAVDRRGEHSAVCRWTVHNFPRIRARALWSKYFEVGGYDCRLLVYPKGDSQ 133
DG A+E + D A ++TV F R+ L F V +++V P+
Sbjct: 12 DGHNTAEEDMEDDTSWRSEATFQFTVERFSRLSESVLSPPCF-VRNLPWKIMVMPRFYPD 70
Query: 134 ALPGYISIYLQIMDPRGTSSSKWDCFASYRLAIVNLSDESKTIHRDSWHRFSSKKKSHGW 193
P S+ + + S+ W C A L I+N D+ K+ R H F K+ G+
Sbjct: 71 R-PHQKSVGFFLQCNAESDSTSWSCHAQAVLKIINYRDDEKSFSRRISHLFFHKENDWGF 129
Query: 194 CDFTPSSTVFDSKLGYLFNNDA---VLITAD 221
+F S V D + G++ ++ V + AD
Sbjct: 130 SNFMAWSEVTDPEKGFIDDDKVTFEVFVQAD 160
>pdb|2F1Y|A Chain A, Crystal Structure Of The Traf-Like Domain Of HauspUSP7
Bound To A Mdm2 Peptide
Length = 159
Score = 53.1 bits (126), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 35/139 (25%), Positives = 65/139 (46%), Gaps = 13/139 (9%)
Query: 426 GKFTWRIENFTRLKDLLKKRKITGLCIKSRRFQIGNRDCRLIVYPRGQSQPPCHLSV-FL 484
F + +E F+RL + + ++ C + N +++V PR P SV F
Sbjct: 21 ATFQFTVERFSRLSESV----LSPPCF------VRNLPWKIMVMPRFYPDRPHQKSVGFF 70
Query: 485 EVMDSRNTSSDWSCFVSHRLSVVNQKMEEKSVTKESQNRYSKAAKDWGWREFVTLTSLFD 544
++ + S+ WSC L ++N + +EKS ++ + + DWG+ F+ + + D
Sbjct: 71 LQCNAESDSTSWSCHAQAVLKIINYRDDEKSFSRRISHLFFHKENDWGFSNFMAWSEVTD 130
Query: 545 QDSGFLVQDTVVFSAEVLI 563
+ GF+ D V F EV +
Sbjct: 131 PEKGFIDDDKVTF--EVFV 147
Score = 41.2 bits (95), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 40/151 (26%), Positives = 65/151 (43%), Gaps = 13/151 (8%)
Query: 79 AQESVAVDRRGEHSAVCRWTVHNFPRIRARALWSKYFEVGGYDCRLLV----YPKGDSQA 134
A+E + D A ++TV F R+ L F V +++V YP Q
Sbjct: 7 AEEDMEDDTSWRSEATFQFTVERFSRLSESVLSPPCF-VRNLPWKIMVMPRFYPDRPHQK 65
Query: 135 LPGYISIYLQIMDPRGTSSSKWDCFASYRLAIVNLSDESKTIHRDSWHRFSSKKKSHGWC 194
G+ +LQ + S+ W C A L I+N D+ K+ R H F K+ G+
Sbjct: 66 SVGF---FLQCN--AESDSTSWSCHAQAVLKIINYRDDEKSFSRRISHLFFHKENDWGFS 120
Query: 195 DFTPSSTVFDSKLGYLFNNDA---VLITADI 222
+F S V D + G++ ++ V + AD+
Sbjct: 121 NFMAWSEVTDPEKGFIDDDKVTFEVFVQADL 151
>pdb|2F1W|A Chain A, Crystal Structure Of The Traf-Like Domain Of HauspUSP7
Length = 158
Score = 52.8 bits (125), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 35/139 (25%), Positives = 65/139 (46%), Gaps = 13/139 (9%)
Query: 426 GKFTWRIENFTRLKDLLKKRKITGLCIKSRRFQIGNRDCRLIVYPRGQSQPPCHLSV-FL 484
F + +E F+RL + + ++ C + N +++V PR P SV F
Sbjct: 21 ATFQFTVERFSRLSESV----LSPPCF------VRNLPWKIMVMPRFYPDRPHQKSVGFF 70
Query: 485 EVMDSRNTSSDWSCFVSHRLSVVNQKMEEKSVTKESQNRYSKAAKDWGWREFVTLTSLFD 544
++ + S+ WSC L ++N + +EKS ++ + + DWG+ F+ + + D
Sbjct: 71 LQCNAESDSTSWSCHAQAVLKIINYRDDEKSFSRRISHLFFHKENDWGFSNFMAWSEVTD 130
Query: 545 QDSGFLVQDTVVFSAEVLI 563
+ GF+ D V F EV +
Sbjct: 131 PEKGFIDDDKVTF--EVFV 147
Score = 39.7 bits (91), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 40/150 (26%), Positives = 64/150 (42%), Gaps = 13/150 (8%)
Query: 79 AQESVAVDRRGEHSAVCRWTVHNFPRIRARALWSKYFEVGGYDCRLLV----YPKGDSQA 134
A+E + D A ++TV F R+ L F V +++V YP Q
Sbjct: 7 AEEDMEDDTSWRSEATFQFTVERFSRLSESVLSPPCF-VRNLPWKIMVMPRFYPDRPHQK 65
Query: 135 LPGYISIYLQIMDPRGTSSSKWDCFASYRLAIVNLSDESKTIHRDSWHRFSSKKKSHGWC 194
G+ +LQ + S+ W C A L I+N D+ K+ R H F K+ G+
Sbjct: 66 SVGF---FLQCN--AESDSTSWSCHAQAVLKIINYRDDEKSFSRRISHLFFHKENDWGFS 120
Query: 195 DFTPSSTVFDSKLGYLFNNDA---VLITAD 221
+F S V D + G++ ++ V + AD
Sbjct: 121 NFMAWSEVTDPEKGFIDDDKVTFEVFVQAD 150
>pdb|1YY6|A Chain A, The Crystal Strucure Of The N-Terminal Domain Of HauspUSP7
Complexed With An Ebna1 Peptide
pdb|1YZE|A Chain A, Crystal Structure Of The N-Terminal Domain Of Usp7HAUSP.
pdb|1YZE|B Chain B, Crystal Structure Of The N-Terminal Domain Of Usp7HAUSP.
pdb|1YZE|C Chain C, Crystal Structure Of The N-Terminal Domain Of Usp7HAUSP.
pdb|2FOJ|A Chain A, The Crystal Strucure Of The N-Terminal Domain Of HauspUSP7
Complexed With P53 Peptide 364-367
pdb|2FOO|A Chain A, The Crystal Strucure Of The N-Terminal Domain Of HauspUSP7
Complexed With P53 Peptide 359-362
pdb|2FOP|A Chain A, The Crystal Strucure Of The N-Terminal Domain Of HauspUSP7
Complexed With Mdm2 Peptide 147-150
pdb|3MQR|A Chain A, Crystal Structure Of The Usp7:hdmx(Ahss) Complex
pdb|3MQS|C Chain C, Crystal Structure Of The Usp7:hdm2(Psts) Complex
Length = 155
Score = 52.8 bits (125), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 35/139 (25%), Positives = 65/139 (46%), Gaps = 13/139 (9%)
Query: 426 GKFTWRIENFTRLKDLLKKRKITGLCIKSRRFQIGNRDCRLIVYPRGQSQPPCHLSV-FL 484
F + +E F+RL + + ++ C + N +++V PR P SV F
Sbjct: 19 ATFQFTVERFSRLSESV----LSPPCF------VRNLPWKIMVMPRFYPDRPHQKSVGFF 68
Query: 485 EVMDSRNTSSDWSCFVSHRLSVVNQKMEEKSVTKESQNRYSKAAKDWGWREFVTLTSLFD 544
++ + S+ WSC L ++N + +EKS ++ + + DWG+ F+ + + D
Sbjct: 69 LQCNAESDSTSWSCHAQAVLKIINYRDDEKSFSRRISHLFFHKENDWGFSNFMAWSEVTD 128
Query: 545 QDSGFLVQDTVVFSAEVLI 563
+ GF+ D V F EV +
Sbjct: 129 PEKGFIDDDKVTF--EVFV 145
Score = 42.7 bits (99), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 42/154 (27%), Positives = 66/154 (42%), Gaps = 13/154 (8%)
Query: 75 GSGGAQESVAVDRRGEHSAVCRWTVHNFPRIRARALWSKYFEVGGYDCRLLV----YPKG 130
GS A+E + D A ++TV F R+ L F V +++V YP
Sbjct: 1 GSHTAEEDMEDDTSWRSEATFQFTVERFSRLSESVLSPPCF-VRNLPWKIMVMPRFYPDR 59
Query: 131 DSQALPGYISIYLQIMDPRGTSSSKWDCFASYRLAIVNLSDESKTIHRDSWHRFSSKKKS 190
Q G+ +LQ + S+ W C A L I+N D+ K+ R H F K+
Sbjct: 60 PHQKSVGF---FLQCN--AESDSTSWSCHAQAVLKIINYRDDEKSFSRRISHLFFHKEND 114
Query: 191 HGWCDFTPSSTVFDSKLGYLFNNDA---VLITAD 221
G+ +F S V D + G++ ++ V + AD
Sbjct: 115 WGFSNFMAWSEVTDPEKGFIDDDKVTFEVFVQAD 148
>pdb|2XXN|A Chain A, Structure Of The Virf4-Hausp Traf Domain Complex
Length = 143
Score = 52.4 bits (124), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 35/139 (25%), Positives = 65/139 (46%), Gaps = 13/139 (9%)
Query: 426 GKFTWRIENFTRLKDLLKKRKITGLCIKSRRFQIGNRDCRLIVYPRGQSQPPCHLSV-FL 484
F + +E F+RL + + ++ C + N +++V PR P SV F
Sbjct: 7 ATFQFTVERFSRLSESV----LSPPCF------VRNLPWKIMVMPRFYPDRPHQKSVGFF 56
Query: 485 EVMDSRNTSSDWSCFVSHRLSVVNQKMEEKSVTKESQNRYSKAAKDWGWREFVTLTSLFD 544
++ + S+ WSC L ++N + +EKS ++ + + DWG+ F+ + + D
Sbjct: 57 LQCNAESDSTSWSCHAQAVLKIINYRDDEKSFSRRISHLFFHKENDWGFSNFMAWSEVTD 116
Query: 545 QDSGFLVQDTVVFSAEVLI 563
+ GF+ D V F EV +
Sbjct: 117 PEKGFIDDDKVTF--EVFV 133
Score = 36.2 bits (82), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 37/136 (27%), Positives = 59/136 (43%), Gaps = 13/136 (9%)
Query: 93 AVCRWTVHNFPRIRARALWSKYFEVGGYDCRLLV----YPKGDSQALPGYISIYLQIMDP 148
A ++TV F R+ L F V +++V YP Q G+ +LQ
Sbjct: 7 ATFQFTVERFSRLSESVLSPPCF-VRNLPWKIMVMPRFYPDRPHQKSVGF---FLQCN-- 60
Query: 149 RGTSSSKWDCFASYRLAIVNLSDESKTIHRDSWHRFSSKKKSHGWCDFTPSSTVFDSKLG 208
+ S+ W C A L I+N D+ K+ R H F K+ G+ +F S V D + G
Sbjct: 61 AESDSTSWSCHAQAVLKIINYRDDEKSFSRRISHLFFHKENDWGFSNFMAWSEVTDPEKG 120
Query: 209 YLFNNDA---VLITAD 221
++ ++ V + AD
Sbjct: 121 FIDDDKVTFEVFVQAD 136
>pdb|2CR2|A Chain A, Solution Structure Of N-Terminal Domain Of Speckle-Type
Poz Protein
Length = 159
Score = 41.6 bits (96), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 45/158 (28%), Positives = 72/158 (45%), Gaps = 18/158 (11%)
Query: 417 GARKSDGHMGKFT--WRIENFTRLKDLLKKRKITGLCIKSRRFQIGNRD----CRLIVYP 470
G+ S G + KF+ W I NF+ ++ + G IKS F G D C L V P
Sbjct: 1 GSSGSSGKVVKFSYMWTINNFSFCREEM------GEVIKSSTFSSGANDKLKWC-LRVNP 53
Query: 471 RGQSQPPCHLSVFLEVMDSRNTSSDWSCFVSHRLSVVNQKMEEKSVTKESQNRYSKA-AK 529
+G + ++ S S + F + S++N K EE ESQ Y K
Sbjct: 54 KGLDEESKDYLSLYLLLVSCPKSEVRAKF---KFSILNAKGEETKAM-ESQRAYRFVQGK 109
Query: 530 DWGWREFVTLTSLFDQDSGFLVQDTVVFSAEVLILKET 567
DWG+++F+ L D+ +G L D + EV +++++
Sbjct: 110 DWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQDS 147
>pdb|3HQI|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
SpopmathxBTB3-Box-Pucsbc1
pdb|3HQI|B Chain B, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
SpopmathxBTB3-Box-Pucsbc1
pdb|3HU6|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
SpopmathxBTB3-Box-Pucsbc1
pdb|3HU6|B Chain B, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
SpopmathxBTB3-Box-Pucsbc1
Length = 312
Score = 39.7 bits (91), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 41/145 (28%), Positives = 64/145 (44%), Gaps = 16/145 (11%)
Query: 428 FTWRIENFTRLKDLLKKRKITGLCIKSRRFQIGNRD----CRLIVYPRGQSQPPCHLSVF 483
+ W I NF+ R+ G IKS F G D C L V P+G +
Sbjct: 9 YMWTINNFSFC------REEMGEVIKSSTFSSGANDKLKWC-LRVNPKGLDEESKDYLSL 61
Query: 484 LEVMDSRNTSSDWSCFVSHRLSVVNQKMEEKSVTKESQNRYSKA-AKDWGWREFVTLTSL 542
++ S S + F + S++N K EE ESQ Y KDWG+++F+ L
Sbjct: 62 YLLLVSCPKSEVRAKF---KFSILNAKGEETKAM-ESQRAYRFVQGKDWGFKKFIRRGFL 117
Query: 543 FDQDSGFLVQDTVVFSAEVLILKET 567
D+ +G L D + EV +++++
Sbjct: 118 LDEANGLLPDDKLTLFCEVSVVQDS 142
>pdb|3HQH|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmathx-Macroh2asbcpep1
pdb|3HQL|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin
Ligases:spopmathx-Pucsbc1_pep2
pdb|3HQL|B Chain B, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin
Ligases:spopmathx-Pucsbc1_pep2
pdb|3HQM|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmathx-Cisbc2
pdb|3HQM|B Chain B, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmathx-Cisbc2
pdb|3HSV|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmathx-Macroh2asbcpep2
pdb|3HSV|B Chain B, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmathx-Macroh2asbcpep2
Length = 145
Score = 38.1 bits (87), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 40/144 (27%), Positives = 64/144 (44%), Gaps = 16/144 (11%)
Query: 428 FTWRIENFTRLKDLLKKRKITGLCIKSRRFQIGNRD----CRLIVYPRGQSQPPCHLSVF 483
+ W I NF+ ++ + G IKS F G D C L V P+G +
Sbjct: 13 YMWTINNFSFCREEM------GEVIKSSTFSSGANDKLKWC-LRVNPKGLDEESKDYLSL 65
Query: 484 LEVMDSRNTSSDWSCFVSHRLSVVNQKMEEKSVTKESQNRYSKA-AKDWGWREFVTLTSL 542
++ S S + F + S++N K EE ESQ Y KDWG+++F+ L
Sbjct: 66 YLLLVSCPKSEVRAKF---KFSILNAKGEETKAM-ESQRAYRFVQGKDWGFKKFIRRGFL 121
Query: 543 FDQDSGFLVQDTVVFSAEVLILKE 566
D+ +G L D + EV ++++
Sbjct: 122 LDEANGLLPDDKLTLFCEVSVVQD 145
>pdb|3IVB|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Architectures Of Btb-Cul3 Ubiquitin Ligases: Spopmath-
Macroh2asbcpep1
pdb|3IVQ|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmath-Cisbc2
pdb|3IVQ|B Chain B, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmath-Cisbc2
pdb|3IVV|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmath-Pucsbc1_pep1
Length = 145
Score = 37.7 bits (86), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 40/144 (27%), Positives = 64/144 (44%), Gaps = 16/144 (11%)
Query: 428 FTWRIENFTRLKDLLKKRKITGLCIKSRRFQIGNRD----CRLIVYPRGQSQPPCHLSVF 483
+ W I NF+ ++ + G IKS F G D C L V P+G +
Sbjct: 13 YMWTINNFSFCREEM------GEVIKSSTFSSGANDKLKWC-LRVNPKGLDEESKDYLSL 65
Query: 484 LEVMDSRNTSSDWSCFVSHRLSVVNQKMEEKSVTKESQNRYSKA-AKDWGWREFVTLTSL 542
++ S S + F + S++N K EE ESQ Y KDWG+++F+ L
Sbjct: 66 YLLLVSCPKSEVRAKF---KFSILNAKGEETKAM-ESQRAYRFVQGKDWGFKKFIRRDFL 121
Query: 543 FDQDSGFLVQDTVVFSAEVLILKE 566
D+ +G L D + EV ++++
Sbjct: 122 LDEANGLLPDDKLTLFCEVSVVQD 145
>pdb|3UWK|A Chain A, Structure Guided Development Of Novel Thymidine Mimetics
Targeting Pseudomonas Aeruginosa Thymidylate Kinase: From
Hit To Lead Generation
pdb|3UWK|B Chain B, Structure Guided Development Of Novel Thymidine Mimetics
Targeting Pseudomonas Aeruginosa Thymidylate Kinase: From
Hit To Lead Generation
Length = 232
Score = 34.3 bits (77), Expect = 0.54, Method: Composition-based stats.
Identities = 25/80 (31%), Positives = 38/80 (47%), Gaps = 12/80 (15%)
Query: 1046 DALIERLQKSDAEPALRMPVFVALSQLDFGSEVWERILLKSLELLTDSNDEPLAVTIDFI 1105
D L ERL++ E V L++ G+ + ERI ELL +DEP+A + +
Sbjct: 41 DYLAERLRERGIE--------VQLTREPGGTPLAERIR----ELLLAPSDEPMAADTELL 88
Query: 1106 FKAASQCQHLPEAVRSVRVR 1125
A++ QHL +R R
Sbjct: 89 LMFAARAQHLAGVIRPALAR 108
>pdb|4EDH|A Chain A, The Crystal Structure Of Thymidylate Kinase From Pseudomonas
Aeruginosa Pao1 In Complex With Adp,Tmp And Mg.
pdb|4EDH|B Chain B, The Crystal Structure Of Thymidylate Kinase From Pseudomonas
Aeruginosa Pao1 In Complex With Adp,Tmp And Mg.
pdb|4ESH|A Chain A, The Crystal Structure Of Thymidylate Kinase From Pseudomonas
Aeruginosa Pao1 In Complex With Deoxythymidine.
pdb|4GMD|A Chain A, The Crystal Structure Of Thymidylate Kinase From Pseudomonas
Aeruginosa Pao1 In Complex With Azt Monophosphate
pdb|4GMD|B Chain B, The Crystal Structure Of Thymidylate Kinase From Pseudomonas
Aeruginosa Pao1 In Complex With Azt Monophosphate
pdb|4GMD|C Chain C, The Crystal Structure Of Thymidylate Kinase From Pseudomonas
Aeruginosa Pao1 In Complex With Azt Monophosphate
pdb|4GMD|D Chain D, The Crystal Structure Of Thymidylate Kinase From Pseudomonas
Aeruginosa Pao1 In Complex With Azt Monophosphate
Length = 213
Score = 34.3 bits (77), Expect = 0.58, Method: Composition-based stats.
Identities = 25/80 (31%), Positives = 38/80 (47%), Gaps = 12/80 (15%)
Query: 1046 DALIERLQKSDAEPALRMPVFVALSQLDFGSEVWERILLKSLELLTDSNDEPLAVTIDFI 1105
D L ERL++ E V L++ G+ + ERI ELL +DEP+A + +
Sbjct: 24 DYLAERLRERGIE--------VQLTREPGGTPLAERIR----ELLLAPSDEPMAADTELL 71
Query: 1106 FKAASQCQHLPEAVRSVRVR 1125
A++ QHL +R R
Sbjct: 72 LMFAARAQHLAGVIRPALAR 91
>pdb|3UXM|A Chain A, Structure Guided Development Of Novel Thymidine Mimetics
Targeting Pseudomonas Aeruginosa Thymidylate Kinase: From
Hit To Lead Generation
pdb|3UXM|B Chain B, Structure Guided Development Of Novel Thymidine Mimetics
Targeting Pseudomonas Aeruginosa Thymidylate Kinase: From
Hit To Lead Generation
pdb|3UXM|C Chain C, Structure Guided Development Of Novel Thymidine Mimetics
Targeting Pseudomonas Aeruginosa Thymidylate Kinase: From
Hit To Lead Generation
pdb|3UXM|D Chain D, Structure Guided Development Of Novel Thymidine Mimetics
Targeting Pseudomonas Aeruginosa Thymidylate Kinase: From
Hit To Lead Generation
Length = 211
Score = 34.3 bits (77), Expect = 0.58, Method: Composition-based stats.
Identities = 25/80 (31%), Positives = 38/80 (47%), Gaps = 12/80 (15%)
Query: 1046 DALIERLQKSDAEPALRMPVFVALSQLDFGSEVWERILLKSLELLTDSNDEPLAVTIDFI 1105
D L ERL++ E V L++ G+ + ERI ELL +DEP+A + +
Sbjct: 20 DYLAERLRERGIE--------VQLTREPGGTPLAERIR----ELLLAPSDEPMAADTELL 67
Query: 1106 FKAASQCQHLPEAVRSVRVR 1125
A++ QHL +R R
Sbjct: 68 LMFAARAQHLAGVIRPALAR 87
>pdb|3UWO|A Chain A, Structure Guided Development Of Novel Thymidine Mimetics
Targeting Pseudomonas Aeruginosa Thymidylate Kinase: From
Hit To Lead Generation
pdb|3UWO|B Chain B, Structure Guided Development Of Novel Thymidine Mimetics
Targeting Pseudomonas Aeruginosa Thymidylate Kinase: From
Hit To Lead Generation
Length = 220
Score = 33.9 bits (76), Expect = 0.59, Method: Composition-based stats.
Identities = 25/80 (31%), Positives = 38/80 (47%), Gaps = 12/80 (15%)
Query: 1046 DALIERLQKSDAEPALRMPVFVALSQLDFGSEVWERILLKSLELLTDSNDEPLAVTIDFI 1105
D L ERL++ E V L++ G+ + ERI ELL +DEP+A + +
Sbjct: 29 DYLAERLRERGIE--------VQLTREPGGTPLAERIR----ELLLAPSDEPMAADTELL 76
Query: 1106 FKAASQCQHLPEAVRSVRVR 1125
A++ QHL +R R
Sbjct: 77 LMFAARAQHLAGVIRPALAR 96
>pdb|4E5U|A Chain A, The Crystal Structure Of Thymidylate Kinase From Pseudomonas
Aeruginosa Pao1 In Complex With Thymidine Monophosphate.
pdb|4E5U|B Chain B, The Crystal Structure Of Thymidylate Kinase From Pseudomonas
Aeruginosa Pao1 In Complex With Thymidine Monophosphate
Length = 213
Score = 33.1 bits (74), Expect = 1.2, Method: Composition-based stats.
Identities = 25/80 (31%), Positives = 37/80 (46%), Gaps = 12/80 (15%)
Query: 1046 DALIERLQKSDAEPALRMPVFVALSQLDFGSEVWERILLKSLELLTDSNDEPLAVTIDFI 1105
D L ERL++ E V L++ G+ + ERI ELL +DEP A + +
Sbjct: 24 DYLAERLRERGIE--------VQLTREPGGTPLAERIR----ELLLAPSDEPXAADTELL 71
Query: 1106 FKAASQCQHLPEAVRSVRVR 1125
A++ QHL +R R
Sbjct: 72 LXFAARAQHLAGVIRPALAR 91
>pdb|2XZL|A Chain A, Upf1-Rna Complex
Length = 802
Score = 32.7 bits (73), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 33/65 (50%)
Query: 602 NFLSFKEIMETRKIFSKFFQAGGCELRIGVYESFDTICIYLESDQSVGSDLDKNFWVRYR 661
+FL+ E M +I +K F+ G +IGV ++ Y+ + LDK+ +++
Sbjct: 651 SFLNRIEAMNCERIITKLFRDGVKPEQIGVITPYEGQRAYILQYMQMNGSLDKDLYIKVE 710
Query: 662 MAVVN 666
+A V+
Sbjct: 711 VASVD 715
>pdb|2OY3|A Chain A, Crystal Structure Analysis Of The Monomeric Srcr Domain Of
Mouse Marco
pdb|2OYA|A Chain A, Crystal Structure Analysis Of The Dimeric Form Of The Srcr
Domain Of Mouse Marco
pdb|2OYA|B Chain B, Crystal Structure Analysis Of The Dimeric Form Of The Srcr
Domain Of Mouse Marco
Length = 102
Score = 30.8 bits (68), Expect = 6.0, Method: Composition-based stats.
Identities = 17/41 (41%), Positives = 25/41 (60%), Gaps = 6/41 (14%)
Query: 122 CRLLVYPKGDSQALPGYI----SIYLQIMDPRGTSSSKWDC 158
CR+L Y +G +AL Y +I+L ++ RGT +S WDC
Sbjct: 43 CRMLGYSRG--RALSSYGGGSGNIWLDNVNCRGTENSLWDC 81
>pdb|1CZZ|A Chain A, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 17-Residue Cd40 Peptide
pdb|1CZZ|B Chain B, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 17-Residue Cd40 Peptide
pdb|1CZZ|C Chain C, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 17-Residue Cd40 Peptide
Length = 187
Score = 30.0 bits (66), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 21/98 (21%), Positives = 39/98 (39%), Gaps = 10/98 (10%)
Query: 69 SLGTRDGSGGAQESVAVDRRGE-HSAVCRWTVHNFPRIRARALWSK---------YFEVG 118
S+G +D + E ++ + V W + +FPR R A+ + Y
Sbjct: 13 SIGLKDLAMADLEQKVLEMEASTYDGVFIWKISDFPRKRQEAVAGRIPAIFSPAFYTSRY 72
Query: 119 GYDCRLLVYPKGDSQALPGYISIYLQIMDPRGTSSSKW 156
GY L +Y GD ++S++ +M + +W
Sbjct: 73 GYKMCLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLRW 110
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 0.132 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 37,883,217
Number of Sequences: 62578
Number of extensions: 1493723
Number of successful extensions: 3287
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 3248
Number of HSP's gapped (non-prelim): 39
length of query: 1431
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1320
effective length of database: 8,027,179
effective search space: 10595876280
effective search space used: 10595876280
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.9 bits)