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= 038250
(444 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1T1H|A Chain A, Nmr Solution Structure Of The U Box Domain From Atpub14,
An Armadillo Repeat Containing Protein From Arabidopsis
Thaliana
Length = 78
Score = 77.8 bits (190), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 37/77 (48%), Positives = 51/77 (66%), Gaps = 4/77 (5%)
Query: 34 PNHFRCPISLDLMKDPVTLSTGITYDRENIEKWIHEDGNITCPVTNRVLTSFEPIPNHTI 93
P +FRCPISL+LMKDPV +STG TY+R +I+KW+ + G+ TCP + L PN+ +
Sbjct: 6 PEYFRCPISLELMKDPVIVSTGQTYERSSIQKWL-DAGHKTCPKSQETLLHAGLTPNYVL 64
Query: 94 RRMIQDWCVENRSYGIE 110
+ +I WC N GIE
Sbjct: 65 KSLIALWCESN---GIE 78
>pdb|2C2L|A Chain A, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
pdb|2C2L|B Chain B, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
pdb|2C2L|C Chain C, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
pdb|2C2L|D Chain D, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
Length = 281
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 42/71 (59%), Gaps = 1/71 (1%)
Query: 34 PNHFRCPISLDLMKDPVTLSTGITYDRENIEKWIHEDGNITCPVTNRVLTSFEPIPNHTI 93
P++ IS +LM++P +GITYDR++IE+ + G+ PVT LT + IPN +
Sbjct: 206 PDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFN-PVTRSPLTQEQLIPNLAM 264
Query: 94 RRMIQDWCVEN 104
+ +I + EN
Sbjct: 265 KEVIDAFISEN 275
>pdb|2OXQ|C Chain C, Structure Of The Ubch5 :chip U-Box Complex
pdb|2OXQ|D Chain D, Structure Of The Ubch5 :chip U-Box Complex
Length = 80
Score = 48.9 bits (115), Expect = 5e-06, Method: Composition-based stats.
Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 27 GEMELTTPNHFRCPISLDLMKDPVTLSTGITYDRENIEKWIHEDGNITCPVTNRVLTSFE 86
G + P++ IS +LM +P +GITYDR++IE+ + G+ PVT LT +
Sbjct: 4 GSKKREIPDYLCGKISFELMAEPCITPSGITYDRKDIEEHLQRVGHFD-PVTRSPLTQDQ 62
Query: 87 PIPNHTIRRMIQDWCVEN 104
IPN ++ +I + EN
Sbjct: 63 LIPNLAMKEVIDAFIQEN 80
>pdb|2F42|A Chain A, Dimerization And U-Box Domains Of Zebrafish C-Terminal Of
Hsp70 Interacting Protein
Length = 179
Score = 48.1 bits (113), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 42/71 (59%), Gaps = 1/71 (1%)
Query: 34 PNHFRCPISLDLMKDPVTLSTGITYDRENIEKWIHEDGNITCPVTNRVLTSFEPIPNHTI 93
P++ IS +LM++P +GITYDR++IE+ + G+ PVT LT + IPN +
Sbjct: 104 PDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFD-PVTRSPLTQDQLIPNLAM 162
Query: 94 RRMIQDWCVEN 104
+ +I + EN
Sbjct: 163 KEVIDAFIQEN 173
>pdb|2C2V|S Chain S, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
pdb|2C2V|T Chain T, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
pdb|2C2V|U Chain U, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
pdb|2C2V|V Chain V, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
Length = 78
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 42/71 (59%), Gaps = 1/71 (1%)
Query: 34 PNHFRCPISLDLMKDPVTLSTGITYDRENIEKWIHEDGNITCPVTNRVLTSFEPIPNHTI 93
P++ IS +LM++P +GITYDR++IE+ + G+ PVT LT + IPN +
Sbjct: 3 PDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFN-PVTRSPLTQEQLIPNLAM 61
Query: 94 RRMIQDWCVEN 104
+ +I + EN
Sbjct: 62 KEVIDAFISEN 72
>pdb|4DB8|A Chain A, Designed Armadillo-Repeat Protein
pdb|4DB8|B Chain B, Designed Armadillo-Repeat Protein
pdb|4DB8|C Chain C, Designed Armadillo-Repeat Protein
pdb|4DB8|D Chain D, Designed Armadillo-Repeat Protein
Length = 252
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 40/181 (22%), Positives = 80/181 (44%), Gaps = 14/181 (7%)
Query: 157 SDRNKR--CIVDNGAVSVLAEAFETFSKTCLDENVSVLEEILSTLTLLFPLAGEGLTYLG 214
SD N++ ++D GA+ L + + N +L+E L L+ + E + +
Sbjct: 41 SDGNEQIQAVIDAGALPALVQLLSS-------PNEQILQEALWALSNIASGGNEQIQAVI 93
Query: 215 SASSMRCMVWFLKSGDLSRRRNAVLVLREIVSSDHRKVNVLLDIEGAIEPLFKLIKEPIC 274
A ++ +V L S + + A+ L I S + ++ ++D GA+ L +L+ P
Sbjct: 94 DAGALPALVQLLSSPNEQILQEALWALSNIASGGNEQIQAVIDA-GALPALVQLLSSPNE 152
Query: 275 PTATKASLVVVYRTITSASATEKPIQKFVDMGLVSLLLEMLVDAQRSLCEKALSVLDGLC 334
+A ++ AS + IQ +D G + L+++L + ++AL L +
Sbjct: 153 QILQEA----LWALSNIASGGNEQIQAVIDAGALPALVQLLSSPNEQILQEALWALSNIA 208
Query: 335 S 335
S
Sbjct: 209 S 209
>pdb|2KR4|A Chain A, U-Box Domain Of The E3 Ubiquitin Ligase E4b
Length = 85
Score = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 27/75 (36%), Positives = 38/75 (50%), Gaps = 6/75 (8%)
Query: 34 PNHFRCPISLDLMKDPVTLSTGITYDRENIEKWIHEDGNITCPVTNRVLTS--FEPIPNH 91
P+ FR P+ LM DPV L +G DR I + H + T P ++LT EP+P
Sbjct: 12 PDEFRDPLMDTLMTDPVRLPSGTVMDRSIILR--HLLNSPTDPFNRQMLTESMLEPVPE- 68
Query: 92 TIRRMIQDWCVENRS 106
++ IQ W E +S
Sbjct: 69 -LKEQIQAWMREKQS 82
>pdb|2KRE|A Chain A, Solution Structure Of E4bUFD2A U-Box Domain
pdb|3L1X|A Chain A, Crystal Structure Of U-Box Domain Of Human E4b Ubiquitin
Ligase
pdb|3L1Z|B Chain B, Crystal Structure Of The U-Box Domain Of Human E4b
Ubiquitin Ligase In Complex With Ubch5c E2 Ubiquitin
Conjugating Enzyme
Length = 100
Score = 38.5 bits (88), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 37/75 (49%), Gaps = 6/75 (8%)
Query: 34 PNHFRCPISLDLMKDPVTLSTGITYDRENIEKWIHEDGNITCPVTNRVLTS--FEPIPNH 91
P+ FR P+ LM DPV L +G DR I + H + T P + LT EP+P
Sbjct: 27 PDEFRDPLMDTLMTDPVRLPSGTIMDRSIILR--HLLNSPTDPFNRQTLTESMLEPVPE- 83
Query: 92 TIRRMIQDWCVENRS 106
++ IQ W E ++
Sbjct: 84 -LKEQIQAWMREKQN 97
>pdb|4DB9|A Chain A, Designed Armadillo Repeat Protein (Yiiim3aiii)
pdb|4DB9|B Chain B, Designed Armadillo Repeat Protein (Yiiim3aiii)
pdb|4DB9|C Chain C, Designed Armadillo Repeat Protein (Yiiim3aiii)
pdb|4DB9|D Chain D, Designed Armadillo Repeat Protein (Yiiim3aiii)
pdb|4DB9|E Chain E, Designed Armadillo Repeat Protein (Yiiim3aiii)
pdb|4DB9|F Chain F, Designed Armadillo Repeat Protein (Yiiim3aiii)
Length = 210
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 28/136 (20%), Positives = 59/136 (43%), Gaps = 8/136 (5%)
Query: 137 SEDQAGCRDLVAKIKKWTKESDRNKRCIVDNGAVSVLAEAFETFSKTCLDENVSVLEEIL 196
S DQ + + K+ + + + ++D GA+ L + + N +L+E L
Sbjct: 23 SPDQQELQSALRKLSQIASGGNEQIQAVIDAGALPALVQLLSS-------PNEQILQEAL 75
Query: 197 STLTLLFPLAGEGLTYLGSASSMRCMVWFLKSGDLSRRRNAVLVLREIVSSDHRKVNVLL 256
L+ + E + + A ++ +V L S + + A+ L I S + ++ ++
Sbjct: 76 WALSNIASGGNEQIQAVIDAGALPALVQLLSSPNEQILQEALWALSNIASGGNEQIQAVI 135
Query: 257 DIEGAIEPLFKLIKEP 272
D GA+ L +L+ P
Sbjct: 136 DA-GALPALVQLLSSP 150
>pdb|4DB6|A Chain A, Designed Armadillo Repeat Protein (Yiiim3aii)
Length = 210
Score = 33.9 bits (76), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 28/136 (20%), Positives = 59/136 (43%), Gaps = 8/136 (5%)
Query: 137 SEDQAGCRDLVAKIKKWTKESDRNKRCIVDNGAVSVLAEAFETFSKTCLDENVSVLEEIL 196
S DQ + + K+ + + + ++D GA+ L + + N +L+E L
Sbjct: 23 SPDQQELQSALRKLSQIASGGNEQIQAVIDAGALPALVQLLSS-------PNEQILQEAL 75
Query: 197 STLTLLFPLAGEGLTYLGSASSMRCMVWFLKSGDLSRRRNAVLVLREIVSSDHRKVNVLL 256
L+ + E + + A ++ +V L S + + A+ L I S + ++ ++
Sbjct: 76 WALSNIASGGNEQIQAVIDAGALPALVQLLSSPNEQILQEALWALSNIASGGNEQIQAVI 135
Query: 257 DIEGAIEPLFKLIKEP 272
D GA+ L +L+ P
Sbjct: 136 DA-GALPALVQLLSSP 150
>pdb|1WGM|A Chain A, Solution Structure Of The U-Box In Human Ubiquitin
Conjugation Factor E4a
Length = 98
Score = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 34/72 (47%), Gaps = 3/72 (4%)
Query: 35 NHFRCPISLDLMKDPVTL-STGITYDRENIEKWIHEDGNITCPVTNRVLTSFEPIPNHTI 93
+ F PI LM DPV L S+ +T DR I + + D T P LT + PN +
Sbjct: 21 DEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQ--TDPFNRSPLTMDQIRPNTEL 78
Query: 94 RRMIQDWCVENR 105
+ IQ W E +
Sbjct: 79 KEKIQRWLAERK 90
>pdb|4DBA|A Chain A, Designed Armadillo Repeat Protein (Yiim3aii)
pdb|4DBA|B Chain B, Designed Armadillo Repeat Protein (Yiim3aii)
pdb|4DBA|C Chain C, Designed Armadillo Repeat Protein (Yiim3aii)
pdb|4DBA|D Chain D, Designed Armadillo Repeat Protein (Yiim3aii)
Length = 210
Score = 32.7 bits (73), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 27/118 (22%), Positives = 54/118 (45%), Gaps = 10/118 (8%)
Query: 157 SDRNKR--CIVDNGAVSVLAEAFETFSKTCLDENVSVLEEILSTLTLLFPLAGEGLTYLG 214
SD N++ ++D GA+ L + + N +L+E L L+ + E + +
Sbjct: 41 SDGNEQIQAVIDAGALPALVQLLSS-------PNEQILQEALWALSNIASGGNEQIQAVI 93
Query: 215 SASSMRCMVWFLKSGDLSRRRNAVLVLREIVSSDHRKVNVLLDIEGAIEPLFKLIKEP 272
A ++ +V L S + + A+ L I S + ++ ++D GA+ L +L+ P
Sbjct: 94 DAGALPALVQLLSSPNEQILQEALWALSNIASGGNEQIQAVIDA-GALPALVQLLSSP 150
>pdb|2C1T|A Chain A, Structure Of The Kap60p:nup2 Complex
pdb|2C1T|B Chain B, Structure Of The Kap60p:nup2 Complex
Length = 454
Score = 32.3 bits (72), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 29/120 (24%), Positives = 54/120 (45%), Gaps = 7/120 (5%)
Query: 222 MVWFLKSGDLSRRRNAVLVLREIVSSDHR-KVNVLLDIEGAIEPLFKLIKEPICPTATKA 280
M L S D+ + +A + R+I+S +HR ++V++ G + L + ++E
Sbjct: 5 MTQQLNSDDMQEQLSATVKFRQILSREHRPPIDVVIQ-AGVVPRLVEFMRE---NQPEML 60
Query: 281 SLVVVYRTITSASATEKPIQKFVDMGLVSLLLEMLVDAQRSLCEKALSVLDGLC--SSDY 338
L + AS T + VD V L +++L + E+A+ L + S+DY
Sbjct: 61 QLEAAWALTNIASGTSAQTKVVVDADAVPLFIQLLYTGSVEVKEQAIWALGNVAGDSTDY 120
>pdb|1WA5|B Chain B, Crystal Structure Of The Exportin Cse1p Complexed With Its
Cargo (Kap60p) And Rangtp
Length = 530
Score = 32.0 bits (71), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 29/120 (24%), Positives = 54/120 (45%), Gaps = 7/120 (5%)
Query: 222 MVWFLKSGDLSRRRNAVLVLREIVSSDHR-KVNVLLDIEGAIEPLFKLIKEPICPTATKA 280
M L S D+ + +A + R+I+S +HR ++V++ G + L + ++E
Sbjct: 92 MTQQLNSDDMQEQLSATVKFRQILSREHRPPIDVVIQA-GVVPRLVEFMRE---NQPEML 147
Query: 281 SLVVVYRTITSASATEKPIQKFVDMGLVSLLLEMLVDAQRSLCEKALSVLDGLC--SSDY 338
L + AS T + VD V L +++L + E+A+ L + S+DY
Sbjct: 148 QLEAAWALTNIASGTSAQTKVVVDADAVPLFIQLLYTGSVEVKEQAIWALGNVAGDSTDY 207
>pdb|1UN0|A Chain A, Crystal Structure Of Yeast Karyopherin (Importin) Alpha In
Complex With A Nup2p N-Terminal Fragment
pdb|1UN0|B Chain B, Crystal Structure Of Yeast Karyopherin (Importin) Alpha In
Complex With A Nup2p N-Terminal Fragment
Length = 443
Score = 32.0 bits (71), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 29/120 (24%), Positives = 54/120 (45%), Gaps = 7/120 (5%)
Query: 222 MVWFLKSGDLSRRRNAVLVLREIVSSDHR-KVNVLLDIEGAIEPLFKLIKEPICPTATKA 280
M L S D+ + +A + R+I+S +HR ++V++ G + L + ++E
Sbjct: 5 MTQQLNSDDMQEQLSATVKFRQILSREHRPPIDVVIQ-AGVVPRLVEFMRE---NQPEML 60
Query: 281 SLVVVYRTITSASATEKPIQKFVDMGLVSLLLEMLVDAQRSLCEKALSVLDGLC--SSDY 338
L + AS T + VD V L +++L + E+A+ L + S+DY
Sbjct: 61 QLEAAWALTNIASGTSAQTKVVVDADAVPLFIQLLYTGSVEVKEQAIWALGNVAGDSTDY 120
>pdb|1BK5|A Chain A, Karyopherin Alpha From Saccharomyces Cerevisiae
pdb|1BK5|B Chain B, Karyopherin Alpha From Saccharomyces Cerevisiae
Length = 422
Score = 32.0 bits (71), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 29/120 (24%), Positives = 54/120 (45%), Gaps = 7/120 (5%)
Query: 222 MVWFLKSGDLSRRRNAVLVLREIVSSDHR-KVNVLLDIEGAIEPLFKLIKEPICPTATKA 280
M L S D+ + +A + R+I+S +HR ++V++ G + L + ++E
Sbjct: 4 MTQQLNSDDMQEQLSATVKFRQILSREHRPPIDVVIQ-AGVVPRLVEFMRE---NQPEML 59
Query: 281 SLVVVYRTITSASATEKPIQKFVDMGLVSLLLEMLVDAQRSLCEKALSVLDGLC--SSDY 338
L + AS T + VD V L +++L + E+A+ L + S+DY
Sbjct: 60 QLEAAWALTNIASGTSAQTKVVVDADAVPLFIQLLYTGSVEVKEQAIWALGNVAGDSTDY 119
>pdb|1BK6|A Chain A, Karyopherin Alpha (Yeast) + Sv40 T Antigen Nls
pdb|1BK6|B Chain B, Karyopherin Alpha (Yeast) + Sv40 T Antigen Nls
Length = 422
Score = 32.0 bits (71), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 29/120 (24%), Positives = 54/120 (45%), Gaps = 7/120 (5%)
Query: 222 MVWFLKSGDLSRRRNAVLVLREIVSSDHR-KVNVLLDIEGAIEPLFKLIKEPICPTATKA 280
M L S D+ + +A + R+I+S +HR ++V++ G + L + ++E
Sbjct: 4 MTQQLNSDDMQEQLSATVKFRQILSREHRPPIDVVIQ-AGVVPRLVEFMRE---NQPEML 59
Query: 281 SLVVVYRTITSASATEKPIQKFVDMGLVSLLLEMLVDAQRSLCEKALSVLDGLC--SSDY 338
L + AS T + VD V L +++L + E+A+ L + S+DY
Sbjct: 60 QLEAAWALTNIASGTSAQTKVVVDADAVPLFIQLLYTGSVEVKEQAIWALGNVAGDSTDY 119
>pdb|1EE4|A Chain A, Crystal Structure Of Yeast Karyopherin (Importin) Alpha In
A Complex With A C-Myc Nls Peptide
pdb|1EE4|B Chain B, Crystal Structure Of Yeast Karyopherin (Importin) Alpha In
A Complex With A C-Myc Nls Peptide
Length = 423
Score = 32.0 bits (71), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 29/120 (24%), Positives = 54/120 (45%), Gaps = 7/120 (5%)
Query: 222 MVWFLKSGDLSRRRNAVLVLREIVSSDHR-KVNVLLDIEGAIEPLFKLIKEPICPTATKA 280
M L S D+ + +A + R+I+S +HR ++V++ G + L + ++E
Sbjct: 6 MTQQLNSDDMQEQLSATVKFRQILSREHRPPIDVVIQ-AGVVPRLVEFMRE---NQPEML 61
Query: 281 SLVVVYRTITSASATEKPIQKFVDMGLVSLLLEMLVDAQRSLCEKALSVLDGLC--SSDY 338
L + AS T + VD V L +++L + E+A+ L + S+DY
Sbjct: 62 QLEAAWALTNIASGTSAQTKVVVDADAVPLFIQLLYTGSVEVKEQAIWALGNVAGDSTDY 121
>pdb|1EE5|A Chain A, Yeast Karyopherin (Importin) Alpha In A Complex With A
Nucleoplasmin Nls Peptide
Length = 424
Score = 32.0 bits (71), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 29/120 (24%), Positives = 54/120 (45%), Gaps = 7/120 (5%)
Query: 222 MVWFLKSGDLSRRRNAVLVLREIVSSDHR-KVNVLLDIEGAIEPLFKLIKEPICPTATKA 280
M L S D+ + +A + R+I+S +HR ++V++ G + L + ++E
Sbjct: 6 MTQQLNSDDMQEQLSATVKFRQILSREHRPPIDVVIQ-AGVVPRLVEFMRE---NQPEML 61
Query: 281 SLVVVYRTITSASATEKPIQKFVDMGLVSLLLEMLVDAQRSLCEKALSVLDGLC--SSDY 338
L + AS T + VD V L +++L + E+A+ L + S+DY
Sbjct: 62 QLEAAWALTNIASGTSAQTKVVVDADAVPLFIQLLYTGSVEVKEQAIWALGNVAGDSTDY 121
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 33/65 (50%), Gaps = 6/65 (9%)
Query: 39 CPISLDLMKDPVTLSTGITYDRE----NIEKWIHEDGNITCPVTNRVLTSFEPI-PNHTI 93
CPI L+L+K+PV+ ++ R N E + DG CPV RV F + PN +
Sbjct: 22 CPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVC-RVPYPFGNLKPNLHV 80
Query: 94 RRMIQ 98
+++
Sbjct: 81 ANIVE 85
>pdb|1S05|A Chain A, Nmr-Validated Structural Model For Oxidized R.Palustris
Cytochrome C556
Length = 129
Score = 30.4 bits (67), Expect = 2.3, Method: Composition-based stats.
Identities = 22/81 (27%), Positives = 38/81 (46%), Gaps = 6/81 (7%)
Query: 144 RDLVAKIKKWTKESDRNKRCIVDNGAVSVLAEAFETFSKTCLDENVSVLEEILSTLTLLF 203
+DLV K +K K++ RN + GA+ A+ + + + +D + +E L LF
Sbjct: 2 QDLVDKTQKLMKDNGRNMMVL---GAI---AKGEKPYDQAAVDAALKQFDETAKDLPKLF 55
Query: 204 PLAGEGLTYLGSASSMRCMVW 224
P + +GL S S +W
Sbjct: 56 PDSVKGLKPFDSKYSSSPKIW 76
>pdb|2QIZ|A Chain A, Structure Of The Yeast U-Box-Containing Ubiquitin Ligase
Ufd2p
Length = 982
Score = 30.0 bits (66), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 34/66 (51%), Gaps = 5/66 (7%)
Query: 34 PNHFRCPISLDLMKDPVTL-STGITYDRENIEKWIHEDGNITCPVTNRVLTSFEPI-PNH 91
P+ F P+ +MKDPV L ++ + DR I+ + D T P NR+ E + PN
Sbjct: 903 PDEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLSDS--TDPF-NRMPLKLEDVTPNE 959
Query: 92 TIRRMI 97
+R+ I
Sbjct: 960 ELRQKI 965
>pdb|3M62|A Chain A, Crystal Structure Of Ufd2 In Complex With The
Ubiquitin-Like (Ubl) Domain Of Rad23
pdb|3M63|A Chain A, Crystal Structure Of Ufd2 In Complex With The
Ubiquitin-Like (Ubl) Domain Of Dsk2
Length = 968
Score = 29.6 bits (65), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 34/66 (51%), Gaps = 5/66 (7%)
Query: 34 PNHFRCPISLDLMKDPVTL-STGITYDRENIEKWIHEDGNITCPVTNRVLTSFEPI-PNH 91
P+ F P+ +MKDPV L ++ + DR I+ + D T P NR+ E + PN
Sbjct: 889 PDEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLSDS--TDPF-NRMPLKLEDVTPNE 945
Query: 92 TIRRMI 97
+R+ I
Sbjct: 946 ELRQKI 951
>pdb|1VKR|A Chain A, Structure Of Iib Domain Of The Mannitol-Specific Permease
Enzyme Ii
Length = 125
Score = 29.3 bits (64), Expect = 5.2, Method: Composition-based stats.
Identities = 21/61 (34%), Positives = 30/61 (49%), Gaps = 7/61 (11%)
Query: 282 LVVVYRTITSASATEKP------IQKFVDMGLVSLLLEMLVDAQRSLCEKALSVLDGLCS 335
LV+ +R +T + + P + F+D GL + L E LV AQR E + V D L
Sbjct: 62 LVITHRDLTERAMRQVPQAQHISLTNFLDSGLYTSLTERLVAAQRH-TENEVKVKDSLKD 120
Query: 336 S 336
S
Sbjct: 121 S 121
>pdb|1RBR|A Chain A, Structural Study Of Mutants Of Escherichia Coli
Ribonuclease Hi With Enhanced Thermostability
Length = 155
Score = 28.5 bits (62), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 20/30 (66%), Gaps = 2/30 (6%)
Query: 41 ISLDLMKDP--VTLSTGITYDRENIEKWIH 68
++L+ +K+P V LST Y R+ I +WIH
Sbjct: 54 VALEALKEPCEVILSTDSQYVRQGITQWIH 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
0.320 0.135 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,598,944
Number of Sequences: 62578
Number of extensions: 437001
Number of successful extensions: 1046
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 1034
Number of HSP's gapped (non-prelim): 25
length of query: 444
length of database: 14,973,337
effective HSP length: 102
effective length of query: 342
effective length of database: 8,590,381
effective search space: 2937910302
effective search space used: 2937910302
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: 53 (25.0 bits)