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= 002565
(907 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 97.8 bits (242), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 65/178 (36%), Positives = 97/178 (54%), Gaps = 7/178 (3%)
Query: 507 LAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKY 566
L +V W +V+DEAQ IKN +T++ +A L++K R L+GTPI+N +DDL+S FL
Sbjct: 145 LKEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPIENKVDDLWSIMTFLNP 204
Query: 567 DPYAVYKSFYSTIKIPISRNSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISL 626
Y F S PI + ++L+A++ +LRRTK D I +LP K +
Sbjct: 205 GLLGSYSEFKSKFATPIKKGDNMAKEELKAIISPFILRRTK---YDKAIINDLPDKIETN 261
Query: 627 TKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVK 684
+ + E+ A YK E ++L F D+ T + IL LL+L+Q DHP L+K
Sbjct: 262 VYCNLTPEQAAMYKA-EVENL--FNNI-DSVTGIKRKGMILSTLLKLKQIVDHPALLK 315
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 44/84 (52%), Gaps = 11/84 (13%)
Query: 387 TLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIV--- 443
+LV+CP SVL+ W EL P L ++H + ++L YD++LTTY+++
Sbjct: 89 SLVICPLSVLKNWEEELSKFAPH---LRFAVFH---EDRSKIKLEDYDIILTTYAVLLRD 142
Query: 444 --TNEVPKQPSVDEEEADEKNGET 465
EV + V +E + KN +T
Sbjct: 143 TRLKEVEWKYIVIDEAQNIKNPQT 166
Score = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 28/49 (57%), Gaps = 7/49 (14%)
Query: 271 LSVNLLKHQKIALAWMLQKETRSLHCLG-GI-LADDQGLGKTISIIALI 317
+ NL +Q +WM R ++ LG GI LADD GLGKT+ IA+
Sbjct: 34 IKANLRPYQIKGFSWM-----RFMNKLGFGICLADDMGLGKTLQTIAVF 77
>pdb|1Z63|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
pdb|1Z63|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
Length = 500
Score = 96.7 bits (239), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 65/178 (36%), Positives = 97/178 (54%), Gaps = 7/178 (3%)
Query: 507 LAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKY 566
L +V W +V+DEAQ IKN +T++ +A L++K R L+GTPI+N +DDL+S FL
Sbjct: 145 LKEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPIENKVDDLWSIXTFLNP 204
Query: 567 DPYAVYKSFYSTIKIPISRNSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISL 626
Y F S PI + ++L+A++ +LRRTK D I +LP K +
Sbjct: 205 GLLGSYSEFKSKFATPIKKGDNXAKEELKAIISPFILRRTK---YDKAIINDLPDKIETN 261
Query: 627 TKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVK 684
+ + E+ A YK E ++L F D+ T + IL LL+L+Q DHP L+K
Sbjct: 262 VYCNLTPEQAAXYKA-EVENL--FNNI-DSVTGIKRKGXILSTLLKLKQIVDHPALLK 315
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 44/84 (52%), Gaps = 11/84 (13%)
Query: 387 TLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIV--- 443
+LV+CP SVL+ W EL P L ++H + ++L YD++LTTY+++
Sbjct: 89 SLVICPLSVLKNWEEELSKFAPH---LRFAVFH---EDRSKIKLEDYDIILTTYAVLLRD 142
Query: 444 --TNEVPKQPSVDEEEADEKNGET 465
EV + V +E + KN +T
Sbjct: 143 TRLKEVEWKYIVIDEAQNIKNPQT 166
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 55.1 bits (131), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 41/176 (23%), Positives = 80/176 (45%), Gaps = 13/176 (7%)
Query: 507 LAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKY 566
L + W + +DEA +KN + + + S + R ++GTP+QN+I +L + FL
Sbjct: 363 LGSIKWQFMAVDEAHRLKNAESSLYESLNSFKVANRMLITGTPLQNNIKELAALVNFLMP 422
Query: 567 DPYAVYKSFYSTIKIPISRNSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISL 626
+ + + + +H L ++ +LRR K +LP KT +
Sbjct: 423 GRFTIDQEIDFENQDEEQEEYIH---DLHRRIQPFILRRLKKDVEK-----SLPSKTERI 474
Query: 627 TKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLL 682
+V+ S + +YK + + + A A G + ++L ++ L++A +HP L
Sbjct: 475 LRVELSDVQTEYYKNILTKNYSALTAGAKGG-----HFSLLNIMNELKKASNHPYL 525
Score = 38.1 bits (87), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 30/47 (63%)
Query: 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNT 900
+ ++FSQ RMLD++ + L+ I ++RLDGT+ R ++ FN+
Sbjct: 574 RVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNS 620
Score = 30.8 bits (68), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 15/19 (78%)
Query: 299 GILADDQGLGKTISIIALI 317
GILAD+ GLGKT+ +A I
Sbjct: 258 GILADEMGLGKTVQTVAFI 276
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
EUKARYOTIC Rad54
Length = 644
Score = 49.7 bits (117), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 35/121 (28%), Positives = 55/121 (45%), Gaps = 14/121 (11%)
Query: 508 AKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYD 567
KVG V+ DE +KN Q A S+ A+RR +SGTPIQN + + +S F+
Sbjct: 191 GKVGL--VICDEGHRLKNSDNQTYLALNSMNAQRRVLISGTPIQNDLLEYFSLVHFVNSG 248
Query: 568 PYAVYKSFYSTIKIPI---------SRNSLHGYKKLQAVLRAI---MLRRTKGTFIDGQP 615
+ F +IPI ++ G +KLQ ++ + ++RRT P
Sbjct: 249 ILGTAQEFKKRFEIPILKGRDADASDKDRAAGEQKLQELISIVNRCLIRRTSDILSKYLP 308
Query: 616 I 616
+
Sbjct: 309 V 309
Score = 37.4 bits (85), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 26/46 (56%)
Query: 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFN 899
K ++ S +T+ LDL E Y RLDGTMS+ R + V+ FN
Sbjct: 418 KVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRAKIVERFN 463
Score = 32.7 bits (73), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 268 DGLLSVNLLKHQK--IALAWMLQKETRSLHCLGGILADDQGLGKTISIIALI 317
D +LS L HQ+ + W R + G I+AD+ GLGKT+ I LI
Sbjct: 49 DPVLSKVLRPHQREGVKFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLI 100
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 39.3 bits (90), Expect = 0.009, Method: Composition-based stats.
Identities = 14/54 (25%), Positives = 28/54 (51%)
Query: 709 DLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCK 762
+L + ++ +C +C++ +D + CGH+ C C + + D CP RC+
Sbjct: 17 ELXCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFCRCE 70
>pdb|3VGO|A Chain A, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
pdb|3VGO|B Chain B, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
pdb|3VGO|C Chain C, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
Length = 394
Score = 39.3 bits (90), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 28/54 (51%)
Query: 709 DLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCK 762
+L + ++ +C +C++ +D + CGH+ C C + + D CP RC+
Sbjct: 329 ELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFCRCE 382
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 37.7 bits (86), Expect = 0.028, Method: Composition-based stats.
Identities = 13/54 (24%), Positives = 28/54 (51%)
Query: 709 DLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCK 762
+L + ++ +C +C++ +D + CGH+ C C + + + CP RC+
Sbjct: 15 ELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCE 68
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 37.7 bits (86), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 13/55 (23%), Positives = 28/55 (50%)
Query: 708 IDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCK 762
+L + ++ +C +C++ +D + CGH+ C C + + + CP RC+
Sbjct: 324 FELXCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCE 378
>pdb|2Y1M|A Chain A, Structure Of Native C-Cbl
pdb|2Y1M|B Chain B, Structure Of Native C-Cbl
pdb|2Y1M|C Chain C, Structure Of Native C-Cbl
pdb|2Y1M|D Chain D, Structure Of Native C-Cbl
pdb|2Y1M|E Chain E, Structure Of Native C-Cbl
pdb|2Y1M|F Chain F, Structure Of Native C-Cbl
pdb|2Y1N|A Chain A, Structure Of C-Cbl-Zap-70 Peptide Complex
pdb|2Y1N|C Chain C, Structure Of C-Cbl-Zap-70 Peptide Complex
Length = 389
Score = 37.4 bits (85), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 13/54 (24%), Positives = 28/54 (51%)
Query: 709 DLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCK 762
+L + ++ +C +C++ +D + CGH+ C C + + + CP RC+
Sbjct: 323 ELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCE 376
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 37.4 bits (85), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 13/54 (24%), Positives = 28/54 (51%)
Query: 709 DLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCK 762
+L + ++ +C +C++ +D + CGH+ C C + + + CP RC+
Sbjct: 323 ELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCE 376
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 37.4 bits (85), Expect = 0.036, Method: Composition-based stats.
Identities = 13/54 (24%), Positives = 28/54 (51%)
Query: 709 DLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCK 762
+L + ++ +C +C++ +D + CGH+ C C + + + CP RC+
Sbjct: 18 ELXCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCE 71
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 37.4 bits (85), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 13/54 (24%), Positives = 28/54 (51%)
Query: 709 DLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCK 762
+L + ++ +C +C++ +D + CGH+ C C + + + CP RC+
Sbjct: 325 ELXCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCE 378
>pdb|2CSY|A Chain A, Solution Structure Of The Ring Domain Of The Zinc Finger
Protein 183-Like 1
Length = 81
Score = 34.3 bits (77), Expect = 0.34, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 19/41 (46%), Gaps = 6/41 (14%)
Query: 721 CCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRC 761
C +C ++ VVT C H FC CA E+ PRC
Sbjct: 18 CFICRQAFQNPVVTKCRHYFCESCALEHFRA------TPRC 52
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 33.5 bits (75), Expect = 0.58, Method: Composition-based stats.
Identities = 14/43 (32%), Positives = 21/43 (48%)
Query: 719 AICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRC 761
A C VC + ++ V+ CGH FC C + + + P P C
Sbjct: 16 ASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC 58
>pdb|3VK6|A Chain A, Crystal Structure Of A Phosphotyrosine Binding Domain
Length = 101
Score = 33.1 bits (74), Expect = 0.72, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 13/23 (56%)
Query: 736 CGHVFCYQCASEYITGDDNMCPA 758
C HVFCY CA + D MCP
Sbjct: 20 CKHVFCYDCAILHEKKGDKMCPG 42
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 33.1 bits (74), Expect = 0.75, Method: Composition-based stats.
Identities = 15/31 (48%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 732 VVTMCGHVFCYQCASEYITGDDNMCPAPRCK 762
V T CGHVFC QC + + + N CP R K
Sbjct: 24 VSTECGHVFCSQCLRDSLK-NANTCPTCRKK 53
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 33.1 bits (74), Expect = 0.80, Method: Composition-based stats.
Identities = 15/31 (48%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 732 VVTMCGHVFCYQCASEYITGDDNMCPAPRCK 762
V T CGHVFC QC + + + N CP R K
Sbjct: 28 VSTECGHVFCSQCLRDSLK-NANTCPTCRKK 57
Score = 33.1 bits (74), Expect = 0.80, Method: Composition-based stats.
Identities = 15/31 (48%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 732 VVTMCGHVFCYQCASEYITGDDNMCPAPRCK 762
V T CGHVFC QC + + + N CP R K
Sbjct: 93 VSTECGHVFCSQCLRDSLK-NANTCPTCRKK 122
>pdb|3NG2|A Chain A, Crystal Structure Of The Rnf4 Ring Domain Dimer
pdb|3NG2|B Chain B, Crystal Structure Of The Rnf4 Ring Domain Dimer
Length = 71
Score = 32.7 bits (73), Expect = 0.88, Method: Composition-based stats.
Identities = 15/31 (48%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 732 VVTMCGHVFCYQCASEYITGDDNMCPAPRCK 762
V T CGHVFC QC + + + N CP R K
Sbjct: 31 VSTECGHVFCSQCLRDSLK-NANTCPTCRKK 60
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 32.3 bits (72), Expect = 1.1, Method: Composition-based stats.
Identities = 14/51 (27%), Positives = 22/51 (43%)
Query: 720 ICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVV 770
IC +C D + V CGH FC +C ++ P CK + + +
Sbjct: 22 ICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNAI 72
>pdb|1CHC|A Chain A, Structure Of The C3hc4 Domain By 1h-Nuclear Magnetic
Resonance Spectroscopy; A New Structural Class Of Zinc-
Finger
Length = 68
Score = 31.2 bits (69), Expect = 2.5, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 714 LETSSAICCVC-SDPPEDSVVTMCGHVFCYQCASEYITGDDNMCP 757
+ T + C +C DP S+ C H FCY C + +I + CP
Sbjct: 1 MATVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIR-QNPTCP 44
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 31.2 bits (69), Expect = 2.8, Method: Composition-based stats.
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 720 ICCVCSDPPEDSVVTMCGHVFCYQCASE 747
IC +C D + V CGH FC +C ++
Sbjct: 22 ICPICLDILQKPVTIDCGHNFCLKCITQ 49
>pdb|3HCT|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The P1
Space Group
pdb|3HCU|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The C2
Space Group
pdb|3HCU|C Chain C, Crystal Structure Of Traf6 In Complex With Ubc13 In The C2
Space Group
Length = 118
Score = 30.8 bits (68), Expect = 3.7, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 721 CCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCP 757
C +C ++V T CGH FC C + I + CP
Sbjct: 21 CPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCP 57
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 30.8 bits (68), Expect = 3.9, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 721 CCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCP 757
C +C ++V T CGH FC C + I + CP
Sbjct: 9 CPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCP 45
>pdb|3HCS|A Chain A, Crystal Structure Of The N-Terminal Domain Of Traf6
pdb|3HCS|B Chain B, Crystal Structure Of The N-Terminal Domain Of Traf6
Length = 170
Score = 30.4 bits (67), Expect = 4.4, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 721 CCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCP 757
C +C ++V T CGH FC C + I + CP
Sbjct: 21 CPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCP 57
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 30.4 bits (67), Expect = 4.7, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 721 CCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCP 757
C +C ++V T CGH FC C + I + CP
Sbjct: 28 CPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCP 64
>pdb|4EPO|C Chain C, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|G Chain G, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|H Chain H, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|K Chain K, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|L Chain L, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
Length = 149
Score = 30.0 bits (66), Expect = 5.9, Method: Composition-based stats.
Identities = 15/61 (24%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 721 CCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCV 780
C +CS+ ++V C H FC C +E++ P C++ + + L NC+
Sbjct: 67 CIICSEYFIEAVTLNCAHSFCSYCINEWMK---RKIECPICRKDIKSKTY--SLVLDNCI 121
Query: 781 S 781
+
Sbjct: 122 N 122
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 29.6 bits (65), Expect = 7.1, Method: Composition-based stats.
Identities = 15/61 (24%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 721 CCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCV 780
C +CS+ ++V C H FC C +E++ P C++ + + L NC+
Sbjct: 56 CIICSEYFIEAVTLNCAHSFCSYCINEWMK---RKIECPICRKDIKSKTY--SLVLDNCI 110
Query: 781 S 781
+
Sbjct: 111 N 111
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 29.6 bits (65), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 732 VVTMCGHVFCYQCASEYITGDDNMCPAPR 760
V T CGHVFC QC + + + N CP R
Sbjct: 36 VSTECGHVFCSQCLRDSLK-NANTCPTCR 63
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 29.6 bits (65), Expect = 8.1, Method: Composition-based stats.
Identities = 12/45 (26%), Positives = 20/45 (44%)
Query: 721 CCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQL 765
C +C + ++ V T C H+FC C + + P CK +
Sbjct: 24 CPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI 68
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
0.316 0.132 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,446,002
Number of Sequences: 62578
Number of extensions: 969825
Number of successful extensions: 1867
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1829
Number of HSP's gapped (non-prelim): 48
length of query: 907
length of database: 14,973,337
effective HSP length: 108
effective length of query: 799
effective length of database: 8,214,913
effective search space: 6563715487
effective search space used: 6563715487
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (26.2 bits)