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= 022989
(289 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 = 6e-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 = 44.3 bits (103), Expect = 7e-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 = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 8/56 (14%)
Query: 232 LTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287
L C +CL+L+ P + C H+FCK C + + L S+CP+C+ ++
Sbjct: 22 LECPICLELIKEPVSTKCDHIFCKFC--------MLKLLNQKKGPSQCPLCKNDIT 69
>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 = 0.005, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 8/63 (12%)
Query: 227 KLEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286
KL+ ++ C +CLD++ P + CGH FC C +++ KCP+C+ +
Sbjct: 16 KLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIG--------ETSCGFFKCPLCKTSV 67
Query: 287 AGN 289
N
Sbjct: 68 RKN 70
>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 146
Length = 71
Score = 38.1 bits (87), Expect = 0.006, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 11/53 (20%)
Query: 234 CAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286
CA+CL +P +L C H+FC LC A+ + +C +CR+E+
Sbjct: 18 CAICLQTCVHPVSLPCKHVFCYLCVKGASWL-----------GKRCALCRQEI 59
>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 = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 25/63 (39%), Gaps = 10/63 (15%)
Query: 227 KLEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286
KLE C C +LV+ P C H CK C + VF CP CR +L
Sbjct: 74 KLEQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVF----------SCPACRHDL 123
Query: 287 AGN 289
N
Sbjct: 124 GQN 126
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 36.2 bits (82), Expect = 0.023, 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|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 = 35.8 bits (81), Expect = 0.031, Method: Composition-based stats.
Identities = 22/63 (34%), Positives = 29/63 (46%), Gaps = 16/63 (25%)
Query: 227 KLEYDLTCAVCLDLVFNPYALSCGHL-FCKLCACSAASVMVFEGLKSASPDSKCPICREE 285
+L+ + TC VC+D + + CGHL CK CA S KCPICR
Sbjct: 20 RLQEERTCKVCMDKEVSIVFIPCGHLVVCKDCAPSL---------------RKCPICRST 64
Query: 286 LAG 288
+ G
Sbjct: 65 IKG 67
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 35.4 bits (80), Expect = 0.041, 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|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 35.0 bits (79), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 11/61 (18%)
Query: 228 LEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287
LE +L C +C + L+C H FC C + E +K +CPICR+++
Sbjct: 50 LENELQCIICSEYFIEAVTLNCAHSFCSYC--------INEWMKRK---IECPICRKDIK 98
Query: 288 G 288
Sbjct: 99 S 99
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 34.7 bits (78), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 11/61 (18%)
Query: 228 LEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287
LE +L C +C + L+C H FC C + E +K +CPICR+++
Sbjct: 50 LENELQCIICSEYFIEAVTLNCAHSFCSYC--------INEWMKRK---IECPICRKDIK 98
Query: 288 G 288
Sbjct: 99 S 99
>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 = 0.061, 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|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 = 34.7 bits (78), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 11/61 (18%)
Query: 228 LEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287
LE +L C +C + L+C H FC C + E +K +CPICR+++
Sbjct: 61 LENELQCIICSEYFIEAVTLNCAHSFCSYC--------INEWMKRK---IECPICRKDIK 109
Query: 288 G 288
Sbjct: 110 S 110
>pdb|3T6P|A Chain A, Iap Antagonist-Induced Conformational Change In Ciap1
Promotes E3 Ligase Activation Via Dimerization
Length = 345
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 29/64 (45%), Gaps = 16/64 (25%)
Query: 227 KLEYDLTCAVCLDLVFNPYALSCGHL-FCKLCACSAASVMVFEGLKSASPDSKCPICREE 285
+L+ + TC VC+D + + CGHL C+ CA S KCPICR
Sbjct: 291 RLQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL---------------RKCPICRGI 335
Query: 286 LAGN 289
+ G
Sbjct: 336 IKGT 339
>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3 Ubiquitin-
Protein Ligase Uhrf1
Length = 124
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 24/61 (39%), Gaps = 10/61 (16%)
Query: 227 KLEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286
K+E C C +LVF P C H CK C + VF CP CR +L
Sbjct: 48 KVEETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVF----------SCPACRYDL 97
Query: 287 A 287
Sbjct: 98 G 98
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 11/66 (16%)
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 REELAG 288
R++L
Sbjct: 97 RKKLVS 102
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 32.7 bits (73), Expect = 0.26, 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 = 0.29, 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|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 32.0 bits (71), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 11/66 (16%)
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 REELAG 288
R++L
Sbjct: 96 RKKLVS 101
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 31.2 bits (69), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 11/66 (16%)
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 REELAG 288
R++L
Sbjct: 77 RKKLVS 82
>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 = 0.89, 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 = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 26/63 (41%), Gaps = 10/63 (15%)
Query: 227 KLEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286
LE C +CL + CGH FCK C + + ++ A KCP+ E L
Sbjct: 21 PLESKYECPICLMALREAVQTPCGHRFCKAC--------IIKSIRDAG--HKCPVDNEIL 70
Query: 287 AGN 289
N
Sbjct: 71 LEN 73
>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 = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 26/62 (41%), Gaps = 10/62 (16%)
Query: 228 LEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287
LE C +CL + CGH FCK C + + ++ A KCP+ E L
Sbjct: 15 LESKYECPICLMALREAVQTPCGHRFCKAC--------IIKSIRDAG--HKCPVDNEILL 64
Query: 288 GN 289
N
Sbjct: 65 EN 66
>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 = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 26/62 (41%), Gaps = 10/62 (16%)
Query: 228 LEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287
LE C +CL + CGH FCK C + + ++ A KCP+ E L
Sbjct: 15 LESKYECPICLMALREAVQTPCGHRFCKAC--------IIKSIRDAG--HKCPVDNEILL 64
Query: 288 GN 289
N
Sbjct: 65 EN 66
>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 = 28.1 bits (61), Expect = 5.2, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 18/62 (29%)
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 EL 286
++
Sbjct: 60 KI 61
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 0.137 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,003,214
Number of Sequences: 62578
Number of extensions: 294866
Number of successful extensions: 830
Number of sequences better than 100.0: 46
Number of HSP's better than 100.0 without gapping: 24
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 795
Number of HSP's gapped (non-prelim): 48
length of query: 289
length of database: 14,973,337
effective HSP length: 98
effective length of query: 191
effective length of database: 8,840,693
effective search space: 1688572363
effective search space used: 1688572363
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)