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= 021796
(307 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2A25|A Chain A, Crystal Structure Of Siah1 Sbd Bound To The Peptide
Ekpaavvapittg From Sip
Length = 193
Score = 100 bits (249), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 56/182 (30%), Positives = 90/182 (49%), Gaps = 5/182 (2%)
Query: 110 VAESLELPCRYQIWGCQDIFPYYSKLKHEKNCNYRPYNCPYAGAECSVTGDIPLLVRHLK 169
VA S+ PC+Y GC+ P+ K HE+ C +RPY+CP GA C G + ++ HL
Sbjct: 1 VANSVLFPCKYASSGCEITLPHTEKADHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLM 60
Query: 170 NDHK-VDMHDGSTFNHRYVKANALEIENATWMLTVFNCFGRHFCLHFEAFH-LGMAPVYM 227
+ HK + G A + + A + + +CFG HF L E +
Sbjct: 61 HQHKSITTLQGEDI---VFLATDINLPGAVDWVMMQSCFGFHFMLVLEKQEKYDGHQQFF 117
Query: 228 AFLRFMGDEEEARQFSYSLEVGGNGRKLTWQGIPRSIRDSHKRVRDSQDGLIIQRNLALF 287
A ++ +G ++A F+Y LE+ G+ R+LTW+ PRSI + + D L+ ++A
Sbjct: 118 AIVQLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHEGIATAIMNSDCLVFDTSIAQL 177
Query: 288 FS 289
F+
Sbjct: 178 FA 179
>pdb|2AN6|A Chain A, Protein-Peptide Complex
pdb|2AN6|B Chain B, Protein-Peptide Complex
pdb|2AN6|C Chain C, Protein-Peptide Complex
pdb|2AN6|D Chain D, Protein-Peptide Complex
Length = 191
Score = 97.8 bits (242), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 54/179 (30%), Positives = 89/179 (49%), Gaps = 5/179 (2%)
Query: 113 SLELPCRYQIWGCQDIFPYYSKLKHEKNCNYRPYNCPYAGAECSVTGDIPLLVRHLKNDH 172
S+ PC+Y GC+ P+ K +HE+ C +RPY+CP GA C G + ++ HL + H
Sbjct: 2 SVLFPCKYASSGCEITLPHTEKAEHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQH 61
Query: 173 K-VDMHDGSTFNHRYVKANALEIENATWMLTVFNCFGRHFCLHFEAFH-LGMAPVYMAFL 230
K + G A + + A + + +CFG HF L E + A +
Sbjct: 62 KSITTLQGEDI---VFLATDINLPGAVDWVMMQSCFGFHFMLVLEKQEKYDGHQQFFAIV 118
Query: 231 RFMGDEEEARQFSYSLEVGGNGRKLTWQGIPRSIRDSHKRVRDSQDGLIIQRNLALFFS 289
+ +G ++A F+Y LE+ G+ R+LTW+ PRSI + + D L+ ++A F+
Sbjct: 119 QLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHEGIATAIMNSDCLVFDTSIAQLFA 177
>pdb|1K2F|A Chain A, Siah, Seven In Absentia Homolog
pdb|1K2F|B Chain B, Siah, Seven In Absentia Homolog
Length = 190
Score = 97.8 bits (242), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 54/179 (30%), Positives = 89/179 (49%), Gaps = 5/179 (2%)
Query: 113 SLELPCRYQIWGCQDIFPYYSKLKHEKNCNYRPYNCPYAGAECSVTGDIPLLVRHLKNDH 172
S+ PC+Y GC+ P+ K +HE+ C +RPY+CP GA C G + ++ HL + H
Sbjct: 1 SVLFPCKYASSGCEITLPHTEKAEHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQH 60
Query: 173 K-VDMHDGSTFNHRYVKANALEIENATWMLTVFNCFGRHFCLHFEAFH-LGMAPVYMAFL 230
K + G A + + A + + +CFG HF L E + A +
Sbjct: 61 KSITTLQGEDI---VFLATDINLPGAVDWVMMQSCFGFHFMLVLEKQEKYDGHQQFFAIV 117
Query: 231 RFMGDEEEARQFSYSLEVGGNGRKLTWQGIPRSIRDSHKRVRDSQDGLIIQRNLALFFS 289
+ +G ++A F+Y LE+ G+ R+LTW+ PRSI + + D L+ ++A F+
Sbjct: 118 QLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHEGIATAIMNSDCLVFDTSIAQLFA 176
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 35.8 bits (81), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 38/81 (46%), Gaps = 7/81 (8%)
Query: 29 ELRGSPCRKATTGFSGNLGTTSNNDVHELLECPVCLNLMYPPIYQCPNGHTLCSSC-KAR 87
EL+ +P T G S +H L CP+CL+++ + H C+ C
Sbjct: 29 ELQRTPQEAITDGLEI---VVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITA 85
Query: 88 VRTG---CPTCRHELGNIRCL 105
+R+G CPTCR +L + R L
Sbjct: 86 LRSGNKECPTCRKKLVSKRSL 106
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 35.0 bits (79), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 38/81 (46%), Gaps = 7/81 (8%)
Query: 29 ELRGSPCRKATTGFSGNLGTTSNNDVHELLECPVCLNLMYPPIYQCPNGHTLCSSC-KAR 87
EL+ +P T G S +H L CP+CL+++ + H C+ C
Sbjct: 9 ELQRTPQEAITDGLEI---VVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITA 65
Query: 88 VRTG---CPTCRHELGNIRCL 105
+R+G CPTCR +L + R L
Sbjct: 66 LRSGNKECPTCRKKLVSKRSL 86
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 34.3 bits (77), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 46/107 (42%), Gaps = 7/107 (6%)
Query: 3 PGGGICKEVIESSIEFSDYEMATSSVELRGSPCRKATTGFSGNLGTTSNNDVHELLECPV 62
P G + + V + + S EL+ +P T G S +H L CP+
Sbjct: 2 PLGSMSQAVQTNGTQPLSKTWELSLYELQRTPQEAITDGLEI---VVSPRSLHSELMCPI 58
Query: 63 CLNLMYPPIYQCPNGHTLCSSC-KARVRTG---CPTCRHELGNIRCL 105
CL+++ + H C+ C +R+G CPTCR +L + R L
Sbjct: 59 CLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSL 105
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 42/83 (50%), Gaps = 15/83 (18%)
Query: 52 NDVHELLECPVCLNLMYPPI-YQCPNGHTLCSSCKARVR------TGCPTCRHELGNIRC 104
N + ++LECP+CL L+ P+ +C H C C ++ + CP C++++ R
Sbjct: 16 NAMQKILECPICLELIKEPVSTKC--DHIFCKFCMLKLLNQKKGPSQCPLCKNDITK-RS 72
Query: 105 LA-----LEKVAESLELPCRYQI 122
L + V E L++ C +Q+
Sbjct: 73 LQESTRFSQLVEELLKIICAFQL 95
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 32.0 bits (71), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 30/56 (53%), Gaps = 12/56 (21%)
Query: 38 ATTGFSGNLGTTSNNDVHELLECPVCL-----NLMYPPIYQCPNGHTLCSSCKARV 88
++G SGNL + + E+LECP+C+ + P + C GHT+C C ++
Sbjct: 1 GSSGSSGNL-----DALREVLECPICMESFTEEQLRPKLLHC--GHTICRQCLEKL 49
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 31.6 bits (70), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 13/57 (22%)
Query: 50 SNNDVHELLECPVCLNLMYPPI-YQCPNGHTLCSSC-----KARV-----RTGCPTC 95
S+ +V E + CP+CL L+ P+ C GH+LC +C K V ++ CP C
Sbjct: 5 SSGNVQEEVTCPICLELLTEPLSLDC--GHSLCRACITVSNKEAVTSMGGKSSCPVC 59
>pdb|1JM7|B Chain B, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 117
Score = 30.8 bits (68), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 54 VHELLECPVCLNLMYPPIYQCPNGHTLCSSCKAR-VRTGCPTC 95
+ +LL C C N++ P+ H CS+C + + TGCP C
Sbjct: 19 LEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVC 61
>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 = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 32/61 (52%), Gaps = 9/61 (14%)
Query: 60 CPVCLNLMYPPIY-QCPNGHTLCSSC-----KARVRTGCPTCRHELGNIRCLALEKVAES 113
C C L+Y P+ +C H +C C KA+V + CP CRH+LG + ++ ++
Sbjct: 81 CVCCQELVYQPVTTEC--FHNVCKDCLQRSFKAQVFS-CPACRHDLGQNYIMIPNEILQT 137
Query: 114 L 114
L
Sbjct: 138 L 138
>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 = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 33/63 (52%), Gaps = 14/63 (22%)
Query: 53 DVHELLECPVCLNLMYPPI-YQCPNGHTLCSSC------KARVRTG---CPTCR--HELG 100
+V E + CP+CL L+ P+ C GH+ C +C K+ + G CP CR ++
Sbjct: 15 NVKEEVTCPICLELLTQPLSLDC--GHSFCQACLTANHKKSMLDKGESSCPVCRISYQPE 72
Query: 101 NIR 103
NIR
Sbjct: 73 NIR 75
>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3 Ubiquitin-
Protein Ligase Uhrf1
Length = 124
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 7/54 (12%)
Query: 52 NDVHELLECPVCLNLMYPPIYQCPNGHTLCSSC-----KARVRTGCPTCRHELG 100
+ V E +C C L++ PI H +C C +A+V + CP CR++LG
Sbjct: 47 SKVEETFQCICCQELVFRPITTVCQ-HNVCKDCLDRSFRAQVFS-CPACRYDLG 98
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 29.3 bits (64), Expect = 2.9, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 9/52 (17%)
Query: 52 NDVHELLECPVCLNLMYPPI-YQCPNGHTLCSSCKARVRT------GCPTCR 96
N + E + CP+CL+++ P+ C GH C C ++ CP C+
Sbjct: 15 NKLQEEVICPICLDILQKPVTIDC--GHNFCLKCITQIGETSCGFFKCPLCK 64
>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 = 28.1 bits (61), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 22/31 (70%), Gaps = 2/31 (6%)
Query: 74 CPNGHTL-CSSCKARVRTGCPTCRHELGNIR 103
CP GHT+ C SC A++++ CP CR + +++
Sbjct: 34 CPCGHTVCCESCAAQLQS-CPVCRSRVEHVQ 63
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 28.1 bits (61), Expect = 6.5, Method: Composition-based stats.
Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 7/50 (14%)
Query: 52 NDVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVRT------GCPTC 95
N + E + CP+CL+++ P+ GH C C ++ CP C
Sbjct: 15 NKLQEEVICPICLDILQKPV-TIDCGHNFCLKCITQIGETSCGFFKCPLC 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 0.138 0.450
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,679,333
Number of Sequences: 62578
Number of extensions: 394840
Number of successful extensions: 795
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 784
Number of HSP's gapped (non-prelim): 21
length of query: 307
length of database: 14,973,337
effective HSP length: 99
effective length of query: 208
effective length of database: 8,778,115
effective search space: 1825847920
effective search space used: 1825847920
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: 51 (24.3 bits)