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= 017402
(372 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 = 88.6 bits (218), Expect = 6e-18, Method: Composition-based stats.
Identities = 37/69 (53%), Positives = 55/69 (79%), Gaps = 1/69 (1%)
Query: 2 ATQFPDDFKCPISLEIMSDPVILSSGHTFDRASIQRWLDSGHRTCPITKLPLPDQPSLIP 61
+ +FP+ F+CPISLE+M DPVI+S+G T++R+SIQ+WLD+GH+TCP ++ L L P
Sbjct: 2 SPEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLL-HAGLTP 60
Query: 62 NHALRSLIS 70
N+ L+SLI+
Sbjct: 61 NYVLKSLIA 69
>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 = 48.5 bits (114), Expect = 6e-06, Method: Composition-based stats.
Identities = 27/67 (40%), Positives = 36/67 (53%), Gaps = 1/67 (1%)
Query: 6 PDDFKCPISLEIMSDPVILSSGHTFDRASIQRWLDSGHRTCPITKLPLPDQPSLIPNHAL 65
PD IS E+M +P I SG T+DR I+ L P+T+ PL Q LIPN A+
Sbjct: 3 PDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPL-TQEQLIPNLAM 61
Query: 66 RSLISNF 72
+ +I F
Sbjct: 62 KEVIDAF 68
>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 = 48.5 bits (114), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 4 QFPDDFKCPISLEIMSDPVILSSGHTFDRASIQRWLDSGHRTCPITKLPLPDQPSLIPNH 63
+ PD IS E+M++P I SG T+DR I+ L P+T+ PL Q LIPN
Sbjct: 9 EIPDYLCGKISFELMAEPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPL-TQDQLIPNL 67
Query: 64 ALRSLISNFTR 74
A++ +I F +
Sbjct: 68 AMKEVIDAFIQ 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 = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 27/67 (40%), Positives = 36/67 (53%), Gaps = 1/67 (1%)
Query: 6 PDDFKCPISLEIMSDPVILSSGHTFDRASIQRWLDSGHRTCPITKLPLPDQPSLIPNHAL 65
PD IS E+M +P I SG T+DR I+ L P+T+ PL Q LIPN A+
Sbjct: 206 PDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLT-QEQLIPNLAM 264
Query: 66 RSLISNF 72
+ +I F
Sbjct: 265 KEVIDAF 271
>pdb|2F42|A Chain A, Dimerization And U-Box Domains Of Zebrafish C-Terminal Of
Hsp70 Interacting Protein
Length = 179
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/69 (39%), Positives = 37/69 (53%), Gaps = 1/69 (1%)
Query: 4 QFPDDFKCPISLEIMSDPVILSSGHTFDRASIQRWLDSGHRTCPITKLPLPDQPSLIPNH 63
+ PD IS E+M +P I SG T+DR I+ L P+T+ PL Q LIPN
Sbjct: 102 EIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLT-QDQLIPNL 160
Query: 64 ALRSLISNF 72
A++ +I F
Sbjct: 161 AMKEVIDAF 169
>pdb|2ECV|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Tripartite Motif-Containing Protein 5
Length = 85
Score = 41.2 bits (95), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 39/69 (56%), Gaps = 8/69 (11%)
Query: 7 DDFKCPISLEIMSDPVILSSGHTFDRASI-----QRWLDSGHRTCPITKLPLPDQPSLI- 60
++ CPI LE+++ P+ L GH+F +A + + LD G +CP+ ++ QP I
Sbjct: 18 EEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISY--QPENIR 75
Query: 61 PNHALRSLI 69
PN + +++
Sbjct: 76 PNRHVANIV 84
>pdb|2QIZ|A Chain A, Structure Of The Yeast U-Box-Containing Ubiquitin Ligase
Ufd2p
Length = 982
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 38/70 (54%), Gaps = 3/70 (4%)
Query: 6 PDDFKCPISLEIMSDPVIL-SSGHTFDRASIQRWLDSGHRTCPITKLPLPDQPSLIPNHA 64
PD+F P+ IM DPVIL +S DR++I+ L S T P ++PL + + PN
Sbjct: 903 PDEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLSD-STDPFNRMPLKLE-DVTPNEE 960
Query: 65 LRSLISNFTR 74
LR I F +
Sbjct: 961 LRQKILCFKK 970
>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 = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 38/70 (54%), Gaps = 3/70 (4%)
Query: 6 PDDFKCPISLEIMSDPVIL-SSGHTFDRASIQRWLDSGHRTCPITKLPLPDQPSLIPNHA 64
PD+F P+ IM DPVIL +S DR++I+ L S T P ++PL + + PN
Sbjct: 889 PDEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLSD-STDPFNRMPLKLE-DVTPNEE 946
Query: 65 LRSLISNFTR 74
LR I F +
Sbjct: 947 LRQKILCFKK 956
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 38.5 bits (88), Expect = 0.005, Method: Composition-based stats.
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 11 CPISLEIMSDPVILSSGHTFDRASIQRWLDSGHRT--CPI 48
C + LE + +PVI+ GH F +A I RW + R CP+
Sbjct: 18 CSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPV 57
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 38.5 bits (88), Expect = 0.006, Method: Composition-based stats.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 5/53 (9%)
Query: 7 DDFKCPISLEIMSDPVILSSGHTFDRASIQRWLDSGHRT-----CPITKLPLP 54
++ CPI LE++ +PV H+F RA I +S T CP+ ++P P
Sbjct: 18 EEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYP 70
>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 = 36.2 bits (82), Expect = 0.028, Method: Composition-based stats.
Identities = 25/81 (30%), Positives = 40/81 (49%), Gaps = 6/81 (7%)
Query: 9 FKCPISLEIMSDPVILSSGHTFDRASIQRWL-DSGHRTCPITKLPLPDQPSLIPNHALRS 67
++CPI L + + V GH F +A I + + D+GH+ CP+ L + N A R
Sbjct: 19 YECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHK-CPVDNEILLENQLFPDNFAKRE 77
Query: 68 LISNFTRTP----LPKPQLEH 84
++S + P L K +L H
Sbjct: 78 ILSLMVKCPNEGCLHKMELRH 98
>pdb|2QJ0|A Chain A, Structure Of The Yeast U-Box-Containing Ubiquitin Ligase
Ufd2p
Length = 982
Score = 35.8 bits (81), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 36/70 (51%), Gaps = 3/70 (4%)
Query: 6 PDDFKCPISLEIMSDPVIL-SSGHTFDRASIQRWLDSGHRTCPITKLPLPDQPSLIPNHA 64
PD+F P+ I DPVIL +S DR++I+ L S T P + PL + + PN
Sbjct: 903 PDEFLDPLXYTIXKDPVILPASKXNIDRSTIKAHLLSD-STDPFNRXPLKLE-DVTPNEE 960
Query: 65 LRSLISNFTR 74
LR I F +
Sbjct: 961 LRQKILCFKK 970
>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 = 34.3 bits (77), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 40/81 (49%), Gaps = 6/81 (7%)
Query: 9 FKCPISLEIMSDPVILSSGHTFDRASIQRWL-DSGHRTCPITKLPLPDQPSLIPNHALRS 67
++CPI L + + V GH F +A I + + D+GH+ CP+ L + N A R
Sbjct: 19 YECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHK-CPVDNEILLENQLFPDNFAKRE 77
Query: 68 LISNFTRTP----LPKPQLEH 84
++S + P L K +L H
Sbjct: 78 ILSLMVKCPNEGCLHKMELRH 98
>pdb|2X1G|F Chain F, Crystal Structure Of Importin13 - Mago-Y14 Complex
pdb|2X1G|G Chain G, Crystal Structure Of Importin13 - Mago-Y14 Complex
Length = 971
Score = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/102 (25%), Positives = 46/102 (45%), Gaps = 9/102 (8%)
Query: 211 IGDYPYAINALVSLLQNGKL--IREKKEAATALYALTSFPENR-------KRVVSCGAVP 261
+G++P AI +++ QN ++ + + L LT+ PE KRVV +
Sbjct: 117 LGEWPGAIEEVINTFQNQRMPNVSADVQLWIMLEVLTAIPEEAQVIHTSVKRVVLRAEIA 176
Query: 262 ILMRLADAGLERAVEVLSILVKCKEGREEMMRVSGCVGVFVK 303
++L +ER +++ V E M R CVG ++K
Sbjct: 177 KRVQLVIHTVERYLKLQMNRVWDAEAYSNMNRAVKCVGTWIK 218
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 20/29 (68%)
Query: 7 DDFKCPISLEIMSDPVILSSGHTFDRASI 35
++ CPI LE++++P+ L GH+ RA I
Sbjct: 11 EEVTCPICLELLTEPLSLDCGHSLCRACI 39
>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 = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 22/34 (64%)
Query: 6 PDDFKCPISLEIMSDPVILSSGHTFDRASIQRWL 39
PD+F+ P+ +M+DPV L SG DR+ I R L
Sbjct: 27 PDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHL 60
>pdb|3ZTG|A Chain A, Solution Structure Of The Ring Finger-Like Domain Of
Retinoblastoma Binding Protein-6 (Rbbp6)
pdb|3ZTG|B Chain B, Solution Structure Of The Ring Finger-Like Domain Of
Retinoblastoma Binding Protein-6 (Rbbp6)
Length = 92
Score = 33.5 bits (75), Expect = 0.20, Method: Composition-based stats.
Identities = 22/69 (31%), Positives = 34/69 (49%), Gaps = 2/69 (2%)
Query: 6 PDDFKCPISLEIMSDPVILSS-GHTF-DRASIQRWLDSGHRTCPITKLPLPDQPSLIPNH 63
PD+ C I +IM+D V++ G+++ D L+S TCP +LI N
Sbjct: 11 PDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIANK 70
Query: 64 ALRSLISNF 72
LR ++NF
Sbjct: 71 FLRQAVNNF 79
>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 = 0.22, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 37/68 (54%), Gaps = 5/68 (7%)
Query: 7 DDFKCPISLEIMSDPVILSSGH-TFDRASIQRWLDSGHRTCPITKLPLP-DQPSLIPNHA 64
D+F PI +M DPV+L S T DR++I R L S +T P + PL DQ + PN
Sbjct: 21 DEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLS-DQTDPFNRSPLTMDQ--IRPNTE 77
Query: 65 LRSLISNF 72
L+ I +
Sbjct: 78 LKEKIQRW 85
>pdb|2KR4|A Chain A, U-Box Domain Of The E3 Ubiquitin Ligase E4b
Length = 85
Score = 33.1 bits (74), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 22/34 (64%)
Query: 6 PDDFKCPISLEIMSDPVILSSGHTFDRASIQRWL 39
PD+F+ P+ +M+DPV L SG DR+ I R L
Sbjct: 12 PDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHL 45
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 32.3 bits (72), Expect = 0.40, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 24/56 (42%), Gaps = 4/56 (7%)
Query: 1 MATQFPDDF----KCPISLEIMSDPVILSSGHTFDRASIQRWLDSGHRTCPITKLP 52
+A FP F C I I++DPV S H F R I R L CP + P
Sbjct: 12 LAVDFPAHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYP 67
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 32.0 bits (71), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 9 FKCPISLEIMSDPVILSSGHTFDRASIQRWLDS--GHRTCPITK 50
+CPI LE++ +PV H F + + + L+ G CP+ K
Sbjct: 22 LECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCK 65
>pdb|1Z6U|A Chain A, Np95-Like Ring Finger Protein Isoform B [homo Sapiens]
pdb|1Z6U|B Chain B, Np95-Like Ring Finger Protein Isoform B [homo Sapiens]
Length = 150
Score = 31.6 bits (70), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 17/64 (26%), Positives = 28/64 (43%)
Query: 9 FKCPISLEIMSDPVILSSGHTFDRASIQRWLDSGHRTCPITKLPLPDQPSLIPNHALRSL 68
F C E++ PV H + +QR + +CP + L +IPN L++L
Sbjct: 79 FMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQTL 138
Query: 69 ISNF 72
+ F
Sbjct: 139 LDLF 142
>pdb|2YU4|A Chain A, Solution Structure Of The Sp-Ring Domain In Non-Smc
Element 2 Homolog (Mms21, S. Cerevisiae)
Length = 94
Score = 31.6 bits (70), Expect = 0.72, Method: Composition-based stats.
Identities = 24/74 (32%), Positives = 34/74 (45%), Gaps = 8/74 (10%)
Query: 9 FKCPISLEIMSDPVILS-SGHTFDRASIQRWLDSGHRT-----CPITKLPLPD--QPSLI 60
F CPI+ E M PV GHT++ +I R ++S + CP D + LI
Sbjct: 8 FTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLI 67
Query: 61 PNHALRSLISNFTR 74
+ ALR I N +
Sbjct: 68 QDEALRRAIENHNK 81
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 31.6 bits (70), Expect = 0.73, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 3/43 (6%)
Query: 11 CPISLEIMSDPVILSSGHTFDRASIQRWLDSGHRTCPITKLPL 53
CPI L+I+ PV + GH F I + G +C K PL
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCITQ---IGETSCGFFKCPL 62
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 31.2 bits (69), Expect = 1.0, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 2/62 (3%)
Query: 9 FKCPISLEIMSDPVILSSGHTFDRASIQRWL-DSGHRTCPITKLPLPDQPSLIPNHALRS 67
++CPI L + + V GH F +A I + + D+GH+ CP+ L + N A R
Sbjct: 26 YECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHK-CPVDNEILLENQLFPDNFAKRE 84
Query: 68 LI 69
++
Sbjct: 85 IL 86
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 31.2 bits (69), Expect = 1.0, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 3/43 (6%)
Query: 11 CPISLEIMSDPVILSSGHTFDRASIQRWLDSGHRTCPITKLPL 53
CPI L+I+ PV + GH F I + G +C K PL
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCITQ---IGETSCGFFKCPL 62
>pdb|3A5I|A Chain A, Structure Of The Cytoplasmic Domain Of Flha
pdb|3A5I|B Chain B, Structure Of The Cytoplasmic Domain Of Flha
Length = 389
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/23 (56%), Positives = 16/23 (69%)
Query: 57 PSLIPNHALRSLISNFTRTPLPK 79
P L+ NHALR L+S F R LP+
Sbjct: 343 PVLLVNHALRPLLSRFLRRSLPQ 365
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 21/43 (48%)
Query: 8 DFKCPISLEIMSDPVILSSGHTFDRASIQRWLDSGHRTCPITK 50
+ +C I +EI+ +PV L HT + Q ++ CP +
Sbjct: 15 ECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCR 57
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 30.0 bits (66), Expect = 2.0, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 2/41 (4%)
Query: 9 FKCPISLEIMSDPVILSSGHTFDRASIQRWL-DSGHRTCPI 48
++CPI L + + V GH F +A I + + D+GH+ CP+
Sbjct: 7 YECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHK-CPV 46
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 28.9 bits (63), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 1/66 (1%)
Query: 8 DFKCPISLEIMSDPVILSSG-HTFDRASIQRWLDSGHRTCPITKLPLPDQPSLIPNHALR 66
+ CPI L+++ + + H F I L SG++ CP + L + SL P+
Sbjct: 54 ELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFD 113
Query: 67 SLISNF 72
+LIS
Sbjct: 114 ALISKI 119
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 28.5 bits (62), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 1/66 (1%)
Query: 8 DFKCPISLEIMSDPVILSSG-HTFDRASIQRWLDSGHRTCPITKLPLPDQPSLIPNHALR 66
+ CPI L+++ + + H F I L SG++ CP + L + SL P+
Sbjct: 34 ELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFD 93
Query: 67 SLISNF 72
+LIS
Sbjct: 94 ALISKI 99
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 28.5 bits (62), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 1/66 (1%)
Query: 8 DFKCPISLEIMSDPVILSSG-HTFDRASIQRWLDSGHRTCPITKLPLPDQPSLIPNHALR 66
+ CPI L+++ + + H F I L SG++ CP + L + SL P+
Sbjct: 53 ELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFD 112
Query: 67 SLISNF 72
+LIS
Sbjct: 113 ALISKI 118
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 0.133 0.378
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,656,330
Number of Sequences: 62578
Number of extensions: 279873
Number of successful extensions: 718
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 696
Number of HSP's gapped (non-prelim): 32
length of query: 372
length of database: 14,973,337
effective HSP length: 100
effective length of query: 272
effective length of database: 8,715,537
effective search space: 2370626064
effective search space used: 2370626064
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: 52 (24.6 bits)