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= 025620
(250 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3TDU|A Chain A, N-Terminal Acetylation Acts As An Avidity Enhancer Within
An Interconnected Multiprotein Complex: Structure Of A
Human Cul1whb- Dcn1p-Acetylated Ubc12n Complex
pdb|3TDU|B Chain B, N-Terminal Acetylation Acts As An Avidity Enhancer Within
An Interconnected Multiprotein Complex: Structure Of A
Human Cul1whb- Dcn1p-Acetylated Ubc12n Complex
pdb|3TDZ|A Chain A, N-Terminal Acetylation Acts As An Avidity Enhancer Within
An Interconnected Multiprotein Complex: Structure Of A
Human Cul1whb- Dcn1p-Stapled Acetylated Ubc12n Complex
pdb|3TDZ|B Chain B, N-Terminal Acetylation Acts As An Avidity Enhancer Within
An Interconnected Multiprotein Complex: Structure Of A
Human Cul1whb- Dcn1p-Stapled Acetylated Ubc12n Complex
Length = 200
Score = 182 bits (461), Expect = 2e-46, Method: Compositional matrix adjust.
Identities = 86/185 (46%), Positives = 124/185 (67%), Gaps = 2/185 (1%)
Query: 57 RHLEELYNRYKDPY-LDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEF 115
+ LE+LYNRYKDP + I +DGI C+DL +DP I +L+++W +AAT CEFSKQEF
Sbjct: 4 KKLEQLYNRYKDPQDENKIGIDGIQQFCDDLALDPASISVLIIAWKFRAATQCEFSKQEF 63
Query: 116 IGGLQSLGIDSLDKFRERISFMRAELKDEQKFREIYNFAFAWAKEKGQKSLALDTAIGMW 175
+ G+ LG DS++K + +I M ELK+ +F++ Y F F +AK GQK L L+ AI W
Sbjct: 64 MDGMTELGCDSIEKLKAQIPKMEQELKEPGRFKDFYQFTFNFAKNPGQKGLDLEMAIAYW 123
Query: 176 QLLFAEKQWPLVDHWCQFLQAKHNKAISRDTWSQLLEFARTVDPALSNYDAEGAWPYLID 235
L+ ++ +D W +FL H ++I +DTW+ LL+F+ + +SNYD EGAWP LID
Sbjct: 124 NLVL-NGRFKFLDLWNKFLLEHHKRSIPKDTWNLLLDFSTMIADDMSNYDEEGAWPVLID 182
Query: 236 EFVEY 240
+FVE+
Sbjct: 183 DFVEF 187
>pdb|4GAO|A Chain A, Dcnl Complex With N-terminally Acetylated Nedd8 E2 Peptide
pdb|4GAO|B Chain B, Dcnl Complex With N-terminally Acetylated Nedd8 E2 Peptide
pdb|4GAO|D Chain D, Dcnl Complex With N-terminally Acetylated Nedd8 E2 Peptide
pdb|4GAO|G Chain G, Dcnl Complex With N-terminally Acetylated Nedd8 E2 Peptide
Length = 200
Score = 181 bits (459), Expect = 3e-46, Method: Compositional matrix adjust.
Identities = 86/185 (46%), Positives = 121/185 (65%), Gaps = 2/185 (1%)
Query: 57 RHLEELYNRYKDPY-LDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEF 115
+ LE LY RYKDP + I VDGI C+DL +DP I +LV++W +AAT CEFS++EF
Sbjct: 4 KKLERLYGRYKDPQDENKIGVDGIQQFCDDLSLDPASISVLVIAWKFRAATQCEFSRKEF 63
Query: 116 IGGLQSLGIDSLDKFRERISFMRAELKDEQKFREIYNFAFAWAKEKGQKSLALDTAIGMW 175
+ G+ LG DS++K + + + ELKD KF++ Y F F +AK GQK L L+ A+ W
Sbjct: 64 LDGMTELGCDSMEKLKALLPRLEQELKDTAKFKDFYQFTFTFAKNPGQKGLDLEMAVAYW 123
Query: 176 QLLFAEKQWPLVDHWCQFLQAKHNKAISRDTWSQLLEFARTVDPALSNYDAEGAWPYLID 235
+L+ + + + +D W FL H ++I RDTW+ LL+F + +SNYD EGAWP LID
Sbjct: 124 KLVLSGR-FKFLDLWNTFLMEHHKRSIPRDTWNLLLDFGNMIADDMSNYDEEGAWPVLID 182
Query: 236 EFVEY 240
+FVEY
Sbjct: 183 DFVEY 187
>pdb|3KEV|A Chain A, X-Ray Crystal Structure Of A Dcun1 Domain-Containing
Protein From Galdieria Sulfuraria
Length = 199
Score = 166 bits (421), Expect = 9e-42, Method: Compositional matrix adjust.
Identities = 79/188 (42%), Positives = 127/188 (67%), Gaps = 2/188 (1%)
Query: 54 TDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQ 113
D + + EL+ YK+P + I +G+ L D+QVDP D+V LV++W +KA++ EFS++
Sbjct: 4 ADKKAILELFQTYKEPLGNYIGAEGLQRLFEDIQVDPSDVVTLVLAWKLKASSTXEFSEK 63
Query: 114 EFIGGLQSLGIDSLDKFRERISFMRAELKDEQKFREIYNFAFAWAKEKGQKSLALDTAIG 173
EF+ GL +L +DSL+K + ++S +R E++D KFR Y F F ++KE Q+SL +TA
Sbjct: 64 EFVEGLANLQVDSLEKLKRKLSSLRKEIEDPSKFRAFYQFVFQYSKEPSQRSLPAETAXA 123
Query: 174 MWQLLFAEKQWPLVDHWCQFLQAKHNKAISRDTWSQLLEFARTVDPALSNYDAEGAWPYL 233
+W +L ++ L+D W +FL+ + +ISRDTW+ L +F++ + LS+YD GAWP L
Sbjct: 124 LWDVLL-RGRFSLLDSWLEFLK-NNTHSISRDTWNLLYDFSQLSEKDLSDYDENGAWPVL 181
Query: 234 IDEFVEYL 241
ID+FV++L
Sbjct: 182 IDDFVKWL 189
>pdb|4GBA|A Chain A, Dcnl Complex With N-terminally Acetylated Nedd8 E2 Peptide
pdb|4GBA|B Chain B, Dcnl Complex With N-terminally Acetylated Nedd8 E2 Peptide
Length = 221
Score = 166 bits (420), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 80/191 (41%), Positives = 118/191 (61%), Gaps = 4/191 (2%)
Query: 57 RHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFI 116
+ LEEL+ RYKD D IL +G+ CNDL VDP + +L+++W +AATMC+F+++EF
Sbjct: 6 QRLEELFRRYKDEREDAILEEGMERFCNDLCVDPTEFRVLLLAWKFQAATMCKFTRKEFF 65
Query: 117 GGLQSLGIDSLDKFRERISFMRAELKDEQKFREIYNFAFAWA--KEKGQKSLALDTAIGM 174
G +++ DS+D R + E K E KF+++Y F F + E+GQ+SL + AI +
Sbjct: 66 DGCKAISADSIDGICARFPSLLTEAKQEDKFKDLYRFTFQFGLDSEEGQRSLHREIAIAL 125
Query: 175 WQLLFAEKQWPLVDHWCQFLQAKHN--KAISRDTWSQLLEFARTVDPALSNYDAEGAWPY 232
W+L+F + P++D W FL + K ISRDTW+ L F + + P LSNY + AWP
Sbjct: 126 WKLVFTQNNPPVLDQWLNFLTENPSGIKGISRDTWNMFLNFTQVIGPDLSNYSEDEAWPS 185
Query: 233 LIDEFVEYLTE 243
L D FVE+ E
Sbjct: 186 LFDTFVEWEME 196
>pdb|3BQ3|A Chain A, Crystal Structure Of S. Cerevisiae Dcn1
Length = 270
Score = 87.0 bits (214), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 63/261 (24%), Positives = 128/261 (49%), Gaps = 26/261 (9%)
Query: 3 KLSRSNRDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTD------- 55
K + ++ ++ F S+T K + + L+ + W++ A + +Y + + + TD
Sbjct: 10 KDASPEQEAIESFTSLTKCDPKVSRKYLQRNHWNINYALNDYYDK-EIGTFTDEVSTVAH 68
Query: 56 ----TRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCE-F 110
+ L +++ Y + ++ +D + +L + +D+ L ++ + + E
Sbjct: 69 PPVYPKELTQVFEHYINN--NLFDIDSLVKFIEELGYNLEDLATLCLAHLLGYKKLEEPL 126
Query: 111 SKQEFIGGLQSLGIDSLDKFRERISFMRAEL-KDEQKFREIYNFAFAWAKEKGQKSLALD 169
+++F+ G ++ +E I + +L +D Q F +IYN+AF + +K + D
Sbjct: 127 KREDFLSTWFXQGCSTISDXQECIKTLDVKLHEDLQYFTQIYNYAFNLILDPNRKDIDTD 186
Query: 170 TAIGMWQLLFAEKQWP------LVDHWCQFLQAKHNKAISRDTWSQLLEFAR---TVDPA 220
I W+L F + ++P L++ W +FL+ + IS+DTW LL F + T+
Sbjct: 187 EGIQYWKLFF-QPEYPVRXEPDLLEAWFRFLRDEGKTTISKDTWRXLLLFFKRYPTIQKI 245
Query: 221 LSNYDAEGAWPYLIDEFVEYL 241
+S+YD AWP++IDEF E L
Sbjct: 246 ISDYDETAAWPFIIDEFYECL 266
>pdb|3O2P|A Chain A, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb)
pdb|3O6B|A Chain A, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|C Chain C, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|E Chain E, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|G Chain G, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|I Chain I, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3TDI|B Chain B, Yeast Cul1whb-Dcn1p Acetylated Ubc12n Complex
pdb|3TDI|A Chain A, Yeast Cul1whb-Dcn1p Acetylated Ubc12n Complex
Length = 202
Score = 77.8 bits (190), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 50/177 (28%), Positives = 91/177 (51%), Gaps = 12/177 (6%)
Query: 76 VDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCE-FSKQEFIGGLQSLGIDSLDKFRERI 134
+D + +L + +D+ L ++ + + E +++F+ G ++ +E I
Sbjct: 23 IDSLVKFIEELGYNLEDLATLCLAHLLGYKKLEEPLKREDFLSTWFMQGCSTISDMQECI 82
Query: 135 SFMRAEL-KDEQKFREIYNFAFAWAKEKGQKSLALDTAIGMWQLLFAEKQWP------LV 187
+ +L +D Q F +IYN+AF + +K + D I W+L F + ++P L+
Sbjct: 83 KTLDVKLHEDLQYFTQIYNYAFNLILDPNRKDIDTDEGIQYWKLFF-QPEYPVRMEPDLL 141
Query: 188 DHWCQFLQAKHNKAISRDTWSQLLEFAR---TVDPALSNYDAEGAWPYLIDEFVEYL 241
+ W +FL+ + IS+DTW LL F + T+ +S+YD AWP++IDEF E L
Sbjct: 142 EAWFRFLRDEGKTTISKDTWRMLLLFFKRYPTIQKIISDYDETAAWPFIIDEFYECL 198
>pdb|2IS9|A Chain A, Structure Of Yeast Dcn-1
Length = 204
Score = 77.4 bits (189), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 50/177 (28%), Positives = 91/177 (51%), Gaps = 12/177 (6%)
Query: 76 VDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCE-FSKQEFIGGLQSLGIDSLDKFRERI 134
+D + +L + +D+ L ++ + + E +++F+ G ++ +E I
Sbjct: 25 IDSLVKFIEELGYNLEDLATLCLAHLLGYKKLEEPLKREDFLSTWFMQGCSTISDMQECI 84
Query: 135 SFMRAEL-KDEQKFREIYNFAFAWAKEKGQKSLALDTAIGMWQLLFAEKQWP------LV 187
+ +L +D Q F +IYN+AF + +K + D I W+L F + ++P L+
Sbjct: 85 KTLDVKLHEDLQYFTQIYNYAFNLILDPNRKDIDTDEGIQYWKLFF-QPEYPVRMEPDLL 143
Query: 188 DHWCQFLQAKHNKAISRDTWSQLLEFAR---TVDPALSNYDAEGAWPYLIDEFVEYL 241
+ W +FL+ + IS+DTW LL F + T+ +S+YD AWP++IDEF E L
Sbjct: 144 EAWFRFLRDEGKTTISKDTWRMLLLFFKRYPTIQKIISDYDETAAWPFIIDEFYECL 200
>pdb|4GEW|A Chain A, Crystal Structure Of Tdp2 From C. Elegans
Length = 362
Score = 34.7 bits (78), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 22/42 (52%)
Query: 5 SRSNRDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYS 46
S S+ KL +F IT E A L+ DW L+ A DVFY
Sbjct: 42 SMSDEQKLHEFAIITATDEAFAQSILQDVDWDLKKALDVFYG 83
>pdb|4F1I|A Chain A, Crystal Structure Of Semet Tdp2 From Caenorhabditis
Elegans
Length = 362
Score = 34.7 bits (78), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 22/42 (52%)
Query: 5 SRSNRDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYS 46
S S+ KL +F IT E A L+ DW L+ A DVFY
Sbjct: 42 SXSDEQKLHEFAIITATDEAFAQSILQDVDWDLKKALDVFYG 83
>pdb|1V92|A Chain A, Solution Structure Of The Uba Domain From P47, A Major
Cofactor Of The Aaa Atpase P97
Length = 46
Score = 32.0 bits (71), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 26/42 (61%)
Query: 4 LSRSNRDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFY 45
++ +D L++FV++TGA E A L+++ W L+ A FY
Sbjct: 1 MAEERQDALREFVAVTGAEEDRARFFLESAGWDLQIALASFY 42
>pdb|2DAL|A Chain A, Solution Structure Of The Novel Identified Uba-Like
Domain In The N-Terminal Of Human Fas Associated Factor
1 Protein
Length = 62
Score = 31.6 bits (70), Expect = 0.49, Method: Composition-based stats.
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 12 LQQFVSITGASEKAALQALKASDWHLEGAFDVF 44
+QQF +ITGASE L+A + +LE A +F
Sbjct: 19 IQQFTTITGASESVGKHMLEACNNNLEMAVTMF 51
>pdb|2LBC|A Chain A, Solution Structure Of Tandem Uba Of Usp13
Length = 126
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 28/52 (53%)
Query: 4 LSRSNRDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTD 55
L +++ ++ G A+QAL+A++ +LE A D +S P+ + +D
Sbjct: 73 LDNQPPEEIVAIITSMGFQRNQAIQALRATNNNLERALDWIFSHPEFEEDSD 124
>pdb|2DZL|A Chain A, Solution Structure Of The Uba Domain In Human Protein
Fam100b
Length = 66
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 12 LQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRH 58
+ QFV G + A Q L+A+ W E A F+ Q ++ ++ H
Sbjct: 21 INQFVLAAGCAADQAKQLLQAAHWQFETALSTFF---QETNIPNSHH 64
>pdb|1OKI|A Chain A, Crystal Structure Of Truncated Human Beta-B1-Crystallin
pdb|1OKI|B Chain B, Crystal Structure Of Truncated Human Beta-B1-Crystallin
Length = 210
Score = 27.7 bits (60), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 26 ALQALKASDWHLEGAFDVFYSQP 48
+L+ L+ WHLEG+F V ++P
Sbjct: 186 SLRRLRDKQWHLEGSFPVLATEP 208
>pdb|4F6L|B Chain B, Crystal Structure Of Aureusimine Biosynthetic Cluster
Reductase Domain
pdb|4F6L|A Chain A, Crystal Structure Of Aureusimine Biosynthetic Cluster
Reductase Domain
Length = 508
Score = 27.7 bits (60), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 33/73 (45%), Gaps = 11/73 (15%)
Query: 140 ELKDEQKFREI------YNFAFAWAKEKGQKSLALDTAIGMWQLLFAEKQWPLVD----- 188
EL ++ F EI Y + ++ Q+ +DT + + + ++WP +
Sbjct: 426 ELVSDESFNEILQKQDMYETIGLTSVDREQQLAMIDTTLTLKIMNHISEKWPTITNNWLY 485
Query: 189 HWCQFLQAKHNKA 201
HW Q+++ NKA
Sbjct: 486 HWAQYIKTIFNKA 498
>pdb|1CC0|E Chain E, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex
pdb|1CC0|F Chain F, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex
pdb|1HH4|D Chain D, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation
pdb|1HH4|E Chain E, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation
Length = 204
Score = 27.3 bits (59), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 34/76 (44%), Gaps = 14/76 (18%)
Query: 23 EKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLE---ELYNRYK-----------D 68
E A Q + + + E V Y P KS+ + + L+ E +YK D
Sbjct: 5 EPTAEQLAQIAAENEEDEHSVNYKPPAQKSIQEIQELDKDDESLRKYKEALLGRVAVSAD 64
Query: 69 PYLDMILVDGITLLCN 84
P + ++V G+TL+C+
Sbjct: 65 PNVPNVVVTGLTLVCS 80
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 0.134 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,143,107
Number of Sequences: 62578
Number of extensions: 279212
Number of successful extensions: 749
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 721
Number of HSP's gapped (non-prelim): 18
length of query: 250
length of database: 14,973,337
effective HSP length: 96
effective length of query: 154
effective length of database: 8,965,849
effective search space: 1380740746
effective search space used: 1380740746
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)