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= 021263
(315 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 44.7 bits (104), Expect = 7e-05, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 35/59 (59%), Gaps = 7/59 (11%)
Query: 226 IKLEYDLTCAVCLDLVFNPYALSCGHLFCKLC-ACSAASVMVFEGLKSASPDSKCPICR 283
+ ++ ++TC +CL+L+ P +L CGH FC+ C + M+ +G +S CP+CR
Sbjct: 14 VNVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKG------ESSCPVCR 66
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 33/59 (55%), Gaps = 4/59 (6%)
Query: 224 SSIKLEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPIC 282
SS ++ ++TC +CL+L+ P +L CGH C+ C +V E + S S CP+C
Sbjct: 5 SSGNVQEEVTCPICLELLTEPLSLDCGHSLCRAC----ITVSNKEAVTSMGGKSSCPVC 59
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 41.6 bits (96), Expect = 5e-04, Method: Composition-based stats.
Identities = 16/56 (28%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 228 LEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICR 283
++ ++TC +CL+L+ P + C H FC+ C + +E ++ CP+CR
Sbjct: 16 IKEEVTCPICLELLKEPVSADCNHSFCRACI-----TLNYESNRNTDGKGNCPVCR 66
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 8/60 (13%)
Query: 232 LTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREIIHISSI 291
L C +CL+L+ P + C H+FCK C + + L S+CP+C+ I S+
Sbjct: 22 LECPICLELIKEPVSTKCDHIFCKFC--------MLKLLNQKKGPSQCPLCKNDITKRSL 73
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 38.1 bits (87), Expect = 0.007, Method: Composition-based stats.
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 8/65 (12%)
Query: 227 KLEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREII 286
KL+ ++ C +CLD++ P + CGH FC C +++ KCP+C+ +
Sbjct: 16 KLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIG--------ETSCGFFKCPLCKTSV 67
Query: 287 HISSI 291
++I
Sbjct: 68 RKNAI 72
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 35.8 bits (81), Expect = 0.029, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 8/56 (14%)
Query: 227 KLEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPIC 282
KL+ ++ C +CLD++ P + CGH FC C +++ KCP+C
Sbjct: 16 KLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIG--------ETSCGFFKCPLC 63
>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 146
Length = 71
Score = 35.8 bits (81), Expect = 0.036, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 11/53 (20%)
Query: 234 CAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREII 286
CA+CL +P +L C H+FC LC A+ + +C +CR+ I
Sbjct: 18 CAICLQTCVHPVSLPCKHVFCYLCVKGASWL-----------GKRCALCRQEI 59
>pdb|3T6P|A Chain A, Iap Antagonist-Induced Conformational Change In Ciap1
Promotes E3 Ligase Activation Via Dimerization
Length = 345
Score = 35.4 bits (80), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 29/61 (47%), Gaps = 16/61 (26%)
Query: 227 KLEYDLTCAVCLDLVFNPYALSCGHL-FCKLCACSAASVMVFEGLKSASPDSKCPICREI 285
+L+ + TC VC+D + + CGHL C+ CA S KCPICR I
Sbjct: 291 RLQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL---------------RKCPICRGI 335
Query: 286 I 286
I
Sbjct: 336 I 336
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 35.0 bits (79), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 29/56 (51%), Gaps = 8/56 (14%)
Query: 227 KLEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPIC 282
L+ + +C+VCL+ + P + CGH FCK C +E L+ D CP+C
Sbjct: 11 NLQVEASCSVCLEYLKEPVIIECGHNFCKACI-----TRWWEDLER---DFPCPVC 58
>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 = 34.7 bits (78), Expect = 0.068, Method: Composition-based stats.
Identities = 22/61 (36%), Positives = 28/61 (45%), Gaps = 16/61 (26%)
Query: 227 KLEYDLTCAVCLDLVFNPYALSCGHL-FCKLCACSAASVMVFEGLKSASPDSKCPICREI 285
+L+ + TC VC+D + + CGHL CK CA S KCPICR
Sbjct: 20 RLQEERTCKVCMDKEVSIVFIPCGHLVVCKDCAPSL---------------RKCPICRST 64
Query: 286 I 286
I
Sbjct: 65 I 65
>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 = 34.7 bits (78), Expect = 0.071, Method: Composition-based stats.
Identities = 21/57 (36%), Positives = 27/57 (47%), Gaps = 15/57 (26%)
Query: 227 KLEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICR 283
+L+ + TC VCLD + + CGHL C CA GL+ CPICR
Sbjct: 9 RLQEERTCKVCLDRAVSIVFVPCGHLVCAECA---------PGLQ------LCPICR 50
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 27/59 (45%), Gaps = 11/59 (18%)
Query: 228 LEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREII 286
LE +L C +C + L+C H FC C + E +K +CPICR+ I
Sbjct: 50 LENELQCIICSEYFIEAVTLNCAHSFCSYC--------INEWMKRK---IECPICRKDI 97
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 27/59 (45%), Gaps = 11/59 (18%)
Query: 228 LEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREII 286
LE +L C +C + L+C H FC C + E +K +CPICR+ I
Sbjct: 50 LENELQCIICSEYFIEAVTLNCAHSFCSYC--------INEWMKRK---IECPICRKDI 97
>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 = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 22/57 (38%), Gaps = 10/57 (17%)
Query: 227 KLEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICR 283
KLE C C +LV+ P C H CK C + VF CP CR
Sbjct: 74 KLEQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVF----------SCPACR 120
>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 = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 27/59 (45%), Gaps = 11/59 (18%)
Query: 228 LEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREII 286
LE +L C +C + L+C H FC C + E +K +CPICR+ I
Sbjct: 61 LENELQCIICSEYFIEAVTLNCAHSFCSYC--------INEWMKRK---IECPICRKDI 108
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 32.7 bits (73), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 219 TLALP-SSIKLEYDLTCAVCLDLVFNPYALSCGHLFCKLC 257
++ALP +I + C +C++++ P L C H CK C
Sbjct: 2 SMALPKDAIPSLSECQCGICMEILVEPVTLPCNHTLCKPC 41
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 32.3 bits (72), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 10/52 (19%)
Query: 232 LTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICR 283
++C +C ++ +P SC HLFC++C VM S CP CR
Sbjct: 24 ISCQICEHILADPVETSCKHLFCRICILRCLKVM----------GSYCPSCR 65
>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3 Ubiquitin-
Protein Ligase Uhrf1
Length = 124
Score = 32.3 bits (72), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 22/57 (38%), Gaps = 10/57 (17%)
Query: 227 KLEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICR 283
K+E C C +LVF P C H CK C + VF CP CR
Sbjct: 48 KVEETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVF----------SCPACR 94
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 31.6 bits (70), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 28/62 (45%), Gaps = 11/62 (17%)
Query: 224 SSIKLEYDLTCAVCLDLVFNPYAL-SCGHLFCKLCACSAASVMVFEGLKSASPDSKCPIC 282
S L +L C +CLD++ N C H FC C + L+S + +CP C
Sbjct: 47 SPRSLHSELMCPICLDMLKNTMTTKECLHRFCADC--------IITALRSG--NKECPTC 96
Query: 283 RE 284
R+
Sbjct: 97 RK 98
>pdb|3KNV|A Chain A, Crystal Structure Of The Ring And First Zinc Finger
Domains Of Traf2
Length = 141
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 226 IKLEYDLTCAVCLDLVFNPYALSCGHLFCKLC 257
KLE C+ C +++ P+ CGH +C C
Sbjct: 26 TKLEAKYLCSACRNVLRRPFQAQCGHRYCSFC 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 = 1.5, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 26/60 (43%), Gaps = 10/60 (16%)
Query: 227 KLEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREII 286
LE C +CL + CGH FCK C + + ++ A KCP+ EI+
Sbjct: 21 PLESKYECPICLMALREAVQTPCGHRFCKAC--------IIKSIRDAG--HKCPVDNEIL 70
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 28/62 (45%), Gaps = 11/62 (17%)
Query: 224 SSIKLEYDLTCAVCLDLVFNPYAL-SCGHLFCKLCACSAASVMVFEGLKSASPDSKCPIC 282
S L +L C +CLD++ N C H FC C + L+S + +CP C
Sbjct: 46 SPRSLHSELMCPICLDMLKNTMTTKECLHRFCADC--------IITALRSG--NKECPTC 95
Query: 283 RE 284
R+
Sbjct: 96 RK 97
>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 = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 26/59 (44%), Gaps = 10/59 (16%)
Query: 228 LEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREII 286
LE C +CL + CGH FCK C + + ++ A KCP+ EI+
Sbjct: 15 LESKYECPICLMALREAVQTPCGHRFCKAC--------IIKSIRDAG--HKCPVDNEIL 63
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 31/69 (44%), Gaps = 14/69 (20%)
Query: 228 LEYDLTCAVCLDLV----FNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDS-KCPIC 282
L L C +C++ P L CGH C+ C E L ++S + +CP C
Sbjct: 12 LREVLECPICMESFTEEQLRPKLLHCGHTICRQC---------LEKLLASSINGVRCPFC 62
Query: 283 REIIHISSI 291
+I I+S+
Sbjct: 63 SKITRITSL 71
>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 = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 26/59 (44%), Gaps = 10/59 (16%)
Query: 228 LEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREII 286
LE C +CL + CGH FCK C + + ++ A KCP+ EI+
Sbjct: 15 LESKYECPICLMALREAVQTPCGHRFCKAC--------IIKSIRDAG--HKCPVDNEIL 63
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 28/62 (45%), Gaps = 11/62 (17%)
Query: 224 SSIKLEYDLTCAVCLDLVFNPYAL-SCGHLFCKLCACSAASVMVFEGLKSASPDSKCPIC 282
S L +L C +CLD++ N C H FC C + L+S + +CP C
Sbjct: 27 SPRSLHSELMCPICLDMLKNTMTTKECLHRFCADC--------IITALRSG--NKECPTC 76
Query: 283 RE 284
R+
Sbjct: 77 RK 78
>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 = 27.7 bits (60), Expect = 7.6, Method: Composition-based stats.
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 18/63 (28%)
Query: 232 LTCAVCLD----LVFNP---YALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICRE 284
++C +C+D +V N + CGH+FC C + + LK+A + CP CR+
Sbjct: 11 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQC--------LRDSLKNA---NTCPTCRK 59
Query: 285 IIH 287
I+
Sbjct: 60 KIN 62
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
0.324 0.136 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,895,989
Number of Sequences: 62578
Number of extensions: 331348
Number of successful extensions: 902
Number of sequences better than 100.0: 39
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 871
Number of HSP's gapped (non-prelim): 42
length of query: 315
length of database: 14,973,337
effective HSP length: 99
effective length of query: 216
effective length of database: 8,778,115
effective search space: 1896072840
effective search space used: 1896072840
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (24.3 bits)