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= 019223
(344 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YHN|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHN|B Chain B, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|C Chain C, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|E Chain E, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|G Chain G, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
Length = 79
Score = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 38/66 (57%), Gaps = 9/66 (13%)
Query: 286 GTQRDRVMPD---------LCVICLEQEYNAVFVPCGHMCCCIICSWHLTNCPLCRRRID 336
G Q+ RV+ + LC++C E+E N+ F PCGH CC C+ L +CP+CR R++
Sbjct: 1 GAQQTRVLQEKLRKLKEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQLQSCPVCRSRVE 60
Query: 337 QVVRTF 342
V +
Sbjct: 61 HVQHVY 66
>pdb|3T6P|A Chain A, Iap Antagonist-Induced Conformational Change In Ciap1
Promotes E3 Ligase Activation Via Dimerization
Length = 345
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 30/46 (65%)
Query: 297 CVICLEQEYNAVFVPCGHMCCCIICSWHLTNCPLCRRRIDQVVRTF 342
C +C+++E + VF+PCGH+ C C+ L CP+CR I VRTF
Sbjct: 298 CKVCMDKEVSVVFIPCGHLVVCQECAPSLRKCPICRGIIKGTVRTF 343
>pdb|3EB5|A Chain A, Structure Of The Ciap2 Ring Domain
pdb|3EB6|A Chain A, Structure Of The Ciap2 Ring Domain Bound To Ubch5b
Length = 74
Score = 52.0 bits (123), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 30/46 (65%)
Query: 297 CVICLEQEYNAVFVPCGHMCCCIICSWHLTNCPLCRRRIDQVVRTF 342
C +C+++E + VF+PCGH+ C C+ L CP+CR I VRTF
Sbjct: 27 CKVCMDKEVSIVFIPCGHLVVCKDCAPSLRKCPICRSTIKGTVRTF 72
>pdb|4IC2|A Chain A, Crystal Structure Of The Xiap Ring Domain
pdb|4IC2|B Chain B, Crystal Structure Of The Xiap Ring Domain
Length = 74
Score = 45.8 bits (107), Expect = 3e-05, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 30/56 (53%)
Query: 276 TNGQAENGSDGTQRDRVMPDLCVICLEQEYNAVFVPCGHMCCCIICSWHLTNCPLC 331
T+ Q E ++ R LC IC+++ VFVPCGH+ C C+ + CP+C
Sbjct: 6 TSLQKEISTEEQLRRLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMC 61
>pdb|4IC3|A Chain A, Crystal Structure Of The F495l Mutant Xiap Ring Domain
pdb|4IC3|B Chain B, Crystal Structure Of The F495l Mutant Xiap Ring Domain
Length = 74
Score = 45.8 bits (107), Expect = 4e-05, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 30/56 (53%)
Query: 276 TNGQAENGSDGTQRDRVMPDLCVICLEQEYNAVFVPCGHMCCCIICSWHLTNCPLC 331
T+ Q E ++ R LC IC+++ VFVPCGH+ C C+ + CP+C
Sbjct: 6 TSLQKEISTEEQLRRLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMC 61
>pdb|2ECG|A Chain A, Solution Structure Of The Ring Domain Of The Baculoviral
Iap Repeat-Containing Protein 4 From Homo Sapiens
Length = 75
Score = 45.4 bits (106), Expect = 4e-05, Method: Composition-based stats.
Identities = 16/36 (44%), Positives = 23/36 (63%)
Query: 296 LCVICLEQEYNAVFVPCGHMCCCIICSWHLTNCPLC 331
LC IC+++ VFVPCGH+ C C+ + CP+C
Sbjct: 27 LCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMC 62
>pdb|4AUQ|B Chain B, Structure Of Birc7-Ubch5b-Ub Complex.
pdb|4AUQ|E Chain E, Structure Of Birc7-Ubch5b-Ub Complex
Length = 62
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 29/46 (63%), Gaps = 1/46 (2%)
Query: 297 CVICLEQEYNAVFVPCGHMCCCIICSWHLTNCPLCRRRIDQVVRTF 342
C +CL++ + VFVPCGH+ C C+ L CP+CR + VRTF
Sbjct: 16 CKVCLDRAVSIVFVPCGHL-VCAECAPGLQLCPICRAPVRSRVRTF 60
>pdb|2EA5|A Chain A, Solution Structure Of The Ring Domain Of The Human Cell
Growth Regulator With Ring Finger Domain 1 Protein
Length = 68
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 27/58 (46%)
Query: 280 AENGSDGTQRDRVMPDLCVICLEQEYNAVFVPCGHMCCCIICSWHLTNCPLCRRRIDQ 337
+GS G + CV+C N V +PC H C C C + CP+CR+ + +
Sbjct: 1 GSSGSSGVEPSEENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKYFQQCPMCRQFVQE 58
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 38.1 bits (87), Expect = 0.008, Method: Composition-based stats.
Identities = 18/44 (40%), Positives = 22/44 (50%), Gaps = 4/44 (9%)
Query: 296 LCVICLEQEYNAVFVPCGH-MCCCIICSWHLTN---CPLCRRRI 335
LC IC E + + PCGH MC + SW + CP CR I
Sbjct: 29 LCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 72
>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 = 0.009, Method: Composition-based stats.
Identities = 18/44 (40%), Positives = 22/44 (50%), Gaps = 4/44 (9%)
Query: 296 LCVICLEQEYNAVFVPCGH-MCCCIICSWHLTN---CPLCRRRI 335
LC IC E + + PCGH MC + SW + CP CR I
Sbjct: 26 LCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 69
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 37.4 bits (85), Expect = 0.012, Method: Composition-based stats.
Identities = 17/44 (38%), Positives = 23/44 (52%), Gaps = 4/44 (9%)
Query: 296 LCVICLEQEYNAVFVPCGH-MCCCIICSWHLTN---CPLCRRRI 335
LC IC E + + PCGH MC + +W ++ CP CR I
Sbjct: 28 LCKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFCRCEI 71
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 37.0 bits (84), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 22/44 (50%), Gaps = 4/44 (9%)
Query: 296 LCVICLEQEYNAVFVPCGH-MCCCIICSWHLTN---CPLCRRRI 335
LC IC E + + PCGH MC + SW + CP CR I
Sbjct: 336 LCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 379
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 37.0 bits (84), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 22/44 (50%), Gaps = 4/44 (9%)
Query: 296 LCVICLEQEYNAVFVPCGH-MCCCIICSWHLTN---CPLCRRRI 335
LC IC E + + PCGH MC + SW + CP CR I
Sbjct: 336 LCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 379
>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 = 36.6 bits (83), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 22/44 (50%), Gaps = 4/44 (9%)
Query: 296 LCVICLEQEYNAVFVPCGH-MCCCIICSWHLTN---CPLCRRRI 335
LC IC E + + PCGH MC + SW + CP CR I
Sbjct: 334 LCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 377
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 36.6 bits (83), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 22/44 (50%), Gaps = 4/44 (9%)
Query: 296 LCVICLEQEYNAVFVPCGH-MCCCIICSWHLTN---CPLCRRRI 335
LC IC E + + PCGH MC + SW + CP CR I
Sbjct: 334 LCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 377
>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 = 36.6 bits (83), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 23/44 (52%), Gaps = 4/44 (9%)
Query: 296 LCVICLEQEYNAVFVPCGH-MCCCIICSWHLTN---CPLCRRRI 335
LC IC E + + PCGH MC + +W ++ CP CR I
Sbjct: 340 LCKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFCRCEI 383
>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 = 35.4 bits (80), Expect = 0.048, Method: Composition-based stats.
Identities = 20/49 (40%), Positives = 27/49 (55%), Gaps = 4/49 (8%)
Query: 297 CVICLEQEYN-AVFVPCGHMCCCI-ICSWHLTN--CPLCRRRIDQVVRT 341
C ICLE N ++ +PC H C + I W N CPLC+ ++ VV T
Sbjct: 8 CPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHT 56
>pdb|2VJE|A Chain A, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJE|C Chain C, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJF|A Chain A, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJF|C Chain C, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
Length = 64
Score = 34.7 bits (78), Expect = 0.072, Method: Composition-based stats.
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 6/52 (11%)
Query: 297 CVICLEQEYNAVFV--PCGHMCCCIICSWHLTN----CPLCRRRIDQVVRTF 342
CVIC + N V GH+ C C+ L CP+CR+ I +V T+
Sbjct: 11 CVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQMIVLTY 62
>pdb|2HDP|A Chain A, Solution Structure Of Hdm2 Ring Finger Domain
pdb|2HDP|B Chain B, Solution Structure Of Hdm2 Ring Finger Domain
Length = 63
Score = 34.7 bits (78), Expect = 0.072, Method: Composition-based stats.
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 6/52 (11%)
Query: 297 CVICLEQEYNAVFV--PCGHMCCCIICSWHLTN----CPLCRRRIDQVVRTF 342
CVIC + N V GH+ C C+ L CP+CR+ I +V T+
Sbjct: 10 CVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQMIVLTY 61
>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 146
Length = 71
Score = 32.0 bits (71), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 29/61 (47%), Gaps = 5/61 (8%)
Query: 281 ENGSDGTQRDRVMPDLCVICLEQEYNAVFVPCGHMCCCIIC----SWHLTNCPLCRRRID 336
+GS G + C ICL+ + V +PC H+ C +C SW C LCR+ I
Sbjct: 2 SSGSSGNTAPSLTVPECAICLQTCVHPVSLPCKHV-FCYLCVKGASWLGKRCALCRQEIP 60
Query: 337 Q 337
+
Sbjct: 61 E 61
>pdb|1UW9|A Chain A, L290f-a222t Chlamydomonas Rubisco Mutant
pdb|1UW9|B Chain B, L290f-a222t Chlamydomonas Rubisco Mutant
pdb|1UW9|E Chain E, L290f-a222t Chlamydomonas Rubisco Mutant
pdb|1UW9|H Chain H, L290f-a222t Chlamydomonas Rubisco Mutant
pdb|1UW9|K Chain K, L290f-a222t Chlamydomonas Rubisco Mutant
pdb|1UW9|O Chain O, L290f-a222t Chlamydomonas Rubisco Mutant
pdb|1UW9|R Chain R, L290f-a222t Chlamydomonas Rubisco Mutant
pdb|1UW9|V Chain V, L290f-a222t Chlamydomonas Rubisco Mutant
Length = 475
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 19/30 (63%)
Query: 235 GTFLIAKRAIHYILQRKRRWELHRRVLAAA 264
G FL RA+H ++ R+R +H RVLA A
Sbjct: 288 GLFLHIHRAMHAVIDRQRNHGIHFRVLAKA 317
>pdb|1UWA|A Chain A, L290f Mutant Rubisco From Chlamydomonas
pdb|1UWA|B Chain B, L290f Mutant Rubisco From Chlamydomonas
pdb|1UWA|E Chain E, L290f Mutant Rubisco From Chlamydomonas
pdb|1UWA|H Chain H, L290f Mutant Rubisco From Chlamydomonas
pdb|1UWA|K Chain K, L290f Mutant Rubisco From Chlamydomonas
pdb|1UWA|O Chain O, L290f Mutant Rubisco From Chlamydomonas
pdb|1UWA|R Chain R, L290f Mutant Rubisco From Chlamydomonas
pdb|1UWA|V Chain V, L290f Mutant Rubisco From Chlamydomonas
Length = 475
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 19/30 (63%)
Query: 235 GTFLIAKRAIHYILQRKRRWELHRRVLAAA 264
G FL RA+H ++ R+R +H RVLA A
Sbjct: 288 GLFLHIHRAMHAVIDRQRNHGIHFRVLAKA 317
>pdb|2VJE|B Chain B, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJE|D Chain D, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJF|B Chain B, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJF|D Chain D, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
Length = 63
Score = 30.0 bits (66), Expect = 2.2, Method: Composition-based stats.
Identities = 14/52 (26%), Positives = 27/52 (51%), Gaps = 6/52 (11%)
Query: 297 CVICLEQ--EYNAVFVPCGHMCCCIICSWHL----TNCPLCRRRIDQVVRTF 342
C +C ++ + N + GH+ C C+ L +CP+C++ I V++ F
Sbjct: 10 CSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQLVIKVF 61
>pdb|3OML|A Chain A, Structure Of Full-Length Peroxisomal Multifunctional
Enzyme Type 2 From Drosophila Melanogaster
Length = 613
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 120 TGRAFVVGARGATGFVLTVGSEVFEESGRSLVRG-TLDYLQGLKMLGVKR 168
G+ F V +G +G V+ SE F+ESGR LVR + ++ G G K+
Sbjct: 417 NGKVFDVMDKG-SGAVVVTNSESFDESGRLLVRNQSTTFIVGAGKFGGKK 465
>pdb|2DM0|A Chain A, Solution Structure Of The Sh2 Domain Of Human Tyrosine-
Protein Kinase Txk
Length = 125
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 34/109 (31%), Positives = 46/109 (42%), Gaps = 14/109 (12%)
Query: 31 KTVTRVNQLKELAHLLDSGSKVLPFIVTVCGRVGSETPISCEYSGLRGVIVEETAEQHF- 89
+ +TR NQ + HLL SK FIV +GS T IS R E A +H+
Sbjct: 21 RNITR-NQAE---HLLRQESKEGAFIVRDSRHLGSYT-ISVFMGARRST---EAAIKHYQ 72
Query: 90 LKHNDAGSWIQDSALMLSMSKEVPWYLDDG-----TGRAFVVGARGATG 133
+K ND+G W E+ WY T + VG G++G
Sbjct: 73 IKKNDSGQWYVAERHAFQSIPELIWYHQHNAAGLMTRLRYPVGLMGSSG 121
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 29.3 bits (64), Expect = 3.7, Method: Composition-based stats.
Identities = 15/28 (53%), Positives = 15/28 (53%), Gaps = 2/28 (7%)
Query: 297 CVICLEQEYNAVFVPCGHMCC--CIICS 322
C ICL AV PCGH C CII S
Sbjct: 28 CPICLMALREAVQTPCGHRFCKACIIKS 55
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 28.9 bits (63), Expect = 3.8, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 19/45 (42%), Gaps = 9/45 (20%)
Query: 297 CVICLEQEYNAVFVPCGHMCC--CIICSWHLT-------NCPLCR 332
C ICLE V C H C CI ++ NCP+CR
Sbjct: 22 CPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCR 66
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 297 CVICLEQEYNAVFVPCGH-MCCCIICSW--HLTNCPLCRRRI 335
C+IC E AV + C H C I W CP+CR+ I
Sbjct: 56 CIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDI 97
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 28.9 bits (63), Expect = 4.2, Method: Composition-based stats.
Identities = 15/28 (53%), Positives = 15/28 (53%), Gaps = 2/28 (7%)
Query: 297 CVICLEQEYNAVFVPCGHMCC--CIICS 322
C ICL AV PCGH C CII S
Sbjct: 9 CPICLMALREAVQTPCGHRFCKACIIKS 36
>pdb|1YS9|A Chain A, Crystal Sructure Of Phosphatase Spy1043 From Streptococcus
Pyogenes
Length = 254
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 35/66 (53%), Gaps = 6/66 (9%)
Query: 159 QGLKMLGVKRIERLLPTGTSLTVVGEAVKDDIGTVRI----QRPHKGPFYVSPKTIDELI 214
+ L++LG++R E ++ LT + +++DI T+ + RP + P P D ++
Sbjct: 189 KSLEVLGIQRSEAVMVGDNYLTDIMAGIQNDIATILVTTGFTRPEEVP--TLPIQPDHVL 246
Query: 215 ENLGKW 220
+L +W
Sbjct: 247 SSLDEW 252
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 28.9 bits (63), Expect = 4.4, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 21/46 (45%), Gaps = 6/46 (13%)
Query: 296 LCVICLEQEYNAVFVPCGHMCC--CII----CSWHLTNCPLCRRRI 335
+C ICL+ V + CGH C CI S CPLC+ +
Sbjct: 22 ICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSV 67
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 28.5 bits (62), Expect = 5.1, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 20/48 (41%), Gaps = 8/48 (16%)
Query: 297 CVICLEQEYNAVFVPCGHMCCCIICSWHLTN-------CPLCRRRIDQ 337
C ICLE V C H+ C C L N CPLC+ I +
Sbjct: 24 CPICLELIKEPVSTKCDHI-FCKFCMLKLLNQKKGPSQCPLCKNDITK 70
>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 = 28.5 bits (62), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 297 CVICLEQEYNAVFVPCGH-MCCCIICSW--HLTNCPLCRRRI 335
C+IC E AV + C H C I W CP+CR+ I
Sbjct: 67 CIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDI 108
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 28.1 bits (61), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 297 CVICLEQEYNAVFVPCGH-MCCCIICSW--HLTNCPLCRRRI 335
C+IC E AV + C H C I W CP+CR+ I
Sbjct: 56 CIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDI 97
>pdb|1WVI|A Chain A, Crystal Structure Of Putative Phosphatase From
Streptococcus Mutans Ua159
pdb|1WVI|B Chain B, Crystal Structure Of Putative Phosphatase From
Streptococcus Mutans Ua159
pdb|1WVI|C Chain C, Crystal Structure Of Putative Phosphatase From
Streptococcus Mutans Ua159
pdb|1WVI|D Chain D, Crystal Structure Of Putative Phosphatase From
Streptococcus Mutans Ua159
Length = 257
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 33/127 (25%), Positives = 58/127 (45%), Gaps = 15/127 (11%)
Query: 99 IQDSALMLSMSKEVPWYLDDGTGRAFVVGARGATGFVLTVGSEVFEESGRSLVRGTLDYL 158
IQ A+ + + + L+ T R + GA GA F+L + V + ++ G + +
Sbjct: 136 IQKGAVFIGTNPD----LNIPTERGLLPGA-GAILFLLEKATRV-----KPIIIGKPEAV 185
Query: 159 ---QGLKMLGVKRIERLLPTGTSLTVVGEAVKDDIGTVRIQRPHKGPFYVS--PKTIDEL 213
+ L LGVKR E ++ LT + +K+DI T+ + P V P D +
Sbjct: 186 IMNKALDRLGVKRHEAIMVGDNYLTDITAGIKNDIATLLVTTGFTKPEEVPALPIQPDFV 245
Query: 214 IENLGKW 220
+ +L +W
Sbjct: 246 LSSLAEW 252
>pdb|1WSR|A Chain A, Crystal Structure Of Human T-Protein Of Glycine Cleavage
System
pdb|1WSR|B Chain B, Crystal Structure Of Human T-Protein Of Glycine Cleavage
System
pdb|1WSV|A Chain A, Crystal Structure Of Human T-Protein Of Glycine Cleavage
System
pdb|1WSV|B Chain B, Crystal Structure Of Human T-Protein Of Glycine Cleavage
System
Length = 375
Score = 27.7 bits (60), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 21/37 (56%)
Query: 76 LRGVIVEETAEQHFLKHNDAGSWIQDSALMLSMSKEV 112
L +IV T+E H ++AG W +D ALM +E+
Sbjct: 99 LDDLIVTNTSEGHLYVVSNAGCWEKDLALMQDKVREL 135
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 27.7 bits (60), Expect = 9.5, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 19/42 (45%), Gaps = 6/42 (14%)
Query: 296 LCVICLEQEYNAVFVPCGHMCC--CII----CSWHLTNCPLC 331
+C ICL+ V + CGH C CI S CPLC
Sbjct: 22 ICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63
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
0.323 0.139 0.435
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,453,460
Number of Sequences: 62578
Number of extensions: 441936
Number of successful extensions: 1105
Number of sequences better than 100.0: 47
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 1080
Number of HSP's gapped (non-prelim): 48
length of query: 344
length of database: 14,973,337
effective HSP length: 100
effective length of query: 244
effective length of database: 8,715,537
effective search space: 2126591028
effective search space used: 2126591028
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.6 bits)