RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4214
(271 letters)
>2afj_A Gene rich cluster, C9 gene; beta sandwich, gene regulation; NMR
{Mus musculus} SCOP: b.29.1.22
Length = 226
Score = 130 bits (328), Expect = 3e-37
Identities = 57/156 (36%), Positives = 78/156 (50%), Gaps = 5/156 (3%)
Query: 49 NEVWRVHCLRFMSENVIKSDLLSSLSTYKA--KLRAYFHSWNPNDCSRNVYIKPNGFTLH 106
+ + + + + L L + + H WNP DCS N+ +K G
Sbjct: 3 SARQSTPTSQALYSDFSPPEGLEELLSAPPPDLVAQRHHGWNPKDCSENIDVKEGGLCFE 62
Query: 107 RNPVAQSTDAVRGKMGFYQGRHAWEVFWQG-PLGTVAVVGIATKDALLQSHGYLALIGSD 165
R PVAQSTD VRGK G+ +G HAWE+ W GT AVVG+AT A LQ+ Y AL+GS+
Sbjct: 63 RRPVAQSTDGVRGKRGYSRGLHAWEISWPLEQRGTHAVVGVATALAPLQADHYAALLGSN 122
Query: 166 SESWGWNIVDNRILHNGE--SQGSYPQLNNPPKWEK 199
SESWGW+I ++ H + YP +
Sbjct: 123 SESWGWDIGRGKLYHQSKGLEAPQYPAGPQGEQLVV 158
>3emw_A SPRY domain-containing SOCS box protein 2; apoptosis nucleus,
apoptosis, UBL conjugation pathwayc, CL transcription
regulation, transcription, phosphoprotein; 1.80A {Homo
sapiens} PDB: 3ek9_A
Length = 217
Score = 125 bits (315), Expect = 2e-35
Identities = 58/136 (42%), Positives = 77/136 (56%), Gaps = 6/136 (4%)
Query: 65 IKSDLLSSLSTYKAKLRAYFHSWNPNDCSRNVYIKPNGFTLHRNPVAQSTDAVRGKMGFY 124
++ L + A+ R H WNP DCS N+ +K G R PVAQSTD RGK G+
Sbjct: 27 LEELLSAPPPDLGAQRR---HGWNPKDCSENIEVKEGGLYFERRPVAQSTDGARGKRGYS 83
Query: 125 QGRHAWEVFWQGPL-GTVAVVGIATKDALLQSHGYLALIGSDSESWGWNIVDNRILHNGE 183
+G HAWE+ W GT AVVG+AT A LQ+ Y AL+GS+SESWGW+I ++ H +
Sbjct: 84 RGLHAWEISWPLEQRGTHAVVGVATALAPLQTDHYAALLGSNSESWGWDIGRGKLYHQSK 143
Query: 184 SQGS--YPQLNNPPKW 197
G+ YP +
Sbjct: 144 GPGAPQYPAGTQGEQL 159
>2jk9_A SPRY domain-containing SOCS box protein 1; transcription
regulation, transcription; 1.79A {Homo sapiens} PDB:
3f2o_A 2fnj_A 2v24_A 2ihs_A
Length = 212
Score = 120 bits (301), Expect = 2e-33
Identities = 60/135 (44%), Positives = 86/135 (63%), Gaps = 5/135 (3%)
Query: 66 KSDLLSSLSTYKAKLRAYFHSWNPNDCSRNVYIKPNG-FTLHRNPVAQSTDAVRGKMGFY 124
+ DLL + ++ HSWN ND S NV++K + HR+PVAQSTDA+RGK+G+
Sbjct: 15 RLDLLLDMPPVSYDVQLL-HSWNNNDRSLNVFVKEDDKLIFHRHPVAQSTDAIRGKVGYT 73
Query: 125 QGRHAWEVFW-QGPLGTVAVVGIATKDALLQSHGYLALIGSDSESWGWNIVDNRILHNGE 183
+G H W++ W GT AVVG+AT DA L S GY L+G++ ESWGW++ NR+ H+G+
Sbjct: 74 RGLHVWQITWAMRQRGTHAVVGVATADAPLHSVGYTTLVGNNHESWGWDLGRNRLYHDGK 133
Query: 184 SQ--GSYPQLNNPPK 196
+Q +YP P +
Sbjct: 134 NQPSKTYPAFLEPDE 148
>3toj_A SET1/ASH2 histone methyltransferase complex subun; transcription,
SPRY domain, prote binding, histone methylation, RBBP5,
DPY-30, nuclear; 2.07A {Homo sapiens}
Length = 213
Score = 61.1 bits (148), Expect = 2e-11
Identities = 20/100 (20%), Positives = 35/100 (35%), Gaps = 9/100 (9%)
Query: 87 WNPNDCSRNVYIKPNGFTLHRNPVAQSTDAVRGKMGFYQGRHAWEVFW-QGPLGTVAVVG 145
+D + + I + T+ + VR G +G +E+ + P T A +G
Sbjct: 15 LALHDRAPQLKISDDRLTVVGE---KGYSMVRASHGVRKGAWYFEITVDEMPPDTAARLG 71
Query: 146 IATKDALLQSHGYLALIGSDSESWGWNIVDNRILHNGESQ 185
+ LQ A +G D S+ W H +
Sbjct: 72 WSQPLGNLQ-----APLGYDKFSYSWRSKKGTKFHQSIGK 106
>2yyo_A SPRY domain-containing protein 3; NPPSFA, national project on
protein structural and functional analyses; 2.00A {Homo
sapiens}
Length = 171
Score = 55.3 bits (133), Expect = 1e-09
Identities = 13/100 (13%), Positives = 31/100 (31%), Gaps = 6/100 (6%)
Query: 90 NDCSRNVYIKPNGFTLHRNPVAQSTDAVRGKMGFYQGRHAWEV-FWQGPLGTVAVVGIAT 148
+ S +I +G TL + + + + +EV + VG+
Sbjct: 3 SGSSGFKHILVDGDTLSYHGNSGEVGCYVASRPLTKDSNYFEVSIVDSGVRGTIAVGLVP 62
Query: 149 KDALLQSHGYLALIGSDSESWGWNIVDNRILHNGESQGSY 188
+ L G +S ++ D ++ + +
Sbjct: 63 QYYSLDHQ-----PGWLPDSVAYHADDGKLYNGRAKGRQF 97
>1fs1_A SKP2 F-BOX, cyclin A/CDK2-associated P19; F-BOX, LRR,
leucine-rich repeat, SCF, ubiquitin, ubiquitin protein
ligase; 1.80A {Homo sapiens} SCOP: a.158.1.1 PDB:
1ldk_E
Length = 53
Score = 51.8 bits (125), Expect = 2e-09
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 10 ISHLPEHILELLFSYLDLTDIRNCMLVCKKWYTLLCNEKNEVWR 53
LP+ +L +FS L L ++ VCK+WY L +E +W+
Sbjct: 9 WDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDE--SLWQ 50
>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR,
cell cycle, protein turnover COM ligase-ligase
inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP:
a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A
Length = 336
Score = 52.2 bits (125), Expect = 5e-08
Identities = 20/72 (27%), Positives = 30/72 (41%), Gaps = 4/72 (5%)
Query: 10 ISHLPEHILELLFSYLDLTDIRNCMLVCKKWYTLLCNEKNEVWRVHCLRFMSENVIKSDL 69
LP+ +L +FS L L ++ VCK+WY L +E +W L +N+
Sbjct: 9 WDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDES--LW--QTLDLTGKNLHPDVT 64
Query: 70 LSSLSTYKAKLR 81
LS R
Sbjct: 65 GRLLSQGVIAFR 76
>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin
ligase, SCF, protein binding; HET: OGK; 2.80A
{Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*
Length = 592
Score = 51.5 bits (123), Expect = 1e-07
Identities = 9/58 (15%), Positives = 24/58 (41%), Gaps = 1/58 (1%)
Query: 10 ISHLPEHILELLFSYLDLT-DIRNCMLVCKKWYTLLCNEKNEVWRVHCLRFMSENVIK 66
+ ++E + +Y+ D + LVC++W+ + + V C + + +
Sbjct: 13 CVATVDDVIEQVMTYITDPKDRDSASLVCRRWFKIDSETREHVTMALCYTATPDRLSR 70
>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation
pathway, ubiquitin Pro ligase, protein binding-cell
cycle complex; 2.80A {Homo sapiens}
Length = 312
Score = 50.5 bits (120), Expect = 2e-07
Identities = 10/51 (19%), Positives = 20/51 (39%), Gaps = 2/51 (3%)
Query: 10 ISHLPEHILELLFSYLDLTDIRNCMLVCKKWYTLLCNEKNEVWRVHCLRFM 60
++ LP + + S+L D+ W + + +WR LR +
Sbjct: 5 LTRLPIDVQLYILSFLSPHDLCQLGSTNHYWNETVRD--PILWRYFLLRDL 53
>2e31_A FBS1, F-box only protein 2; ubiquitin, SCF, ubiquitin ligase, FBS1;
2.40A {Mus musculus} PDB: 2e32_A
Length = 297
Score = 49.9 bits (118), Expect = 3e-07
Identities = 14/52 (26%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 10 ISHLPEHILELLFSYLDLTD-IRNCMLVCKKWYTLLCNEKNEVWRVHCLRFM 60
++ LPE +L + + L T+ ++ C LVC +W L+ + +W + C +
Sbjct: 51 LAELPEPLLLRVLAELPATELVQACRLVCLRWKELV--DGAPLWLLKCQQEG 100
>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich
repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis
thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B*
3c6o_B* 3c6p_B*
Length = 594
Score = 49.1 bits (117), Expect = 6e-07
Identities = 15/36 (41%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 9 IISHLPEHILELLFSYLDLT-DIRNCMLVCKKWYTL 43
I PE +LE +FS++ L D + LVCK WY +
Sbjct: 5 IALSFPEEVLEHVFSFIQLDKDRNSVSLVCKSWYEI 40
>3v7d_B Cell division control protein 4; WD 40 domain, phospho-peptide
complex, E3 ubiquitin ligase, cell cycle, phospho
binding protein, phosphorylation; HET: SEP; 2.31A
{Saccharomyces cerevisiae} PDB: 1nex_B* 3mks_B*
Length = 464
Score = 46.9 bits (112), Expect = 4e-06
Identities = 14/64 (21%), Positives = 29/64 (45%), Gaps = 1/64 (1%)
Query: 8 EIISHLPEHILELLFSYLDLTDIRNCMLVCKKWYTLLCNEKNEVWRVHCLRFMSENVIKS 67
++I+ LP I +F+YL DI N + V + W ++ +W+ + +
Sbjct: 13 DLITSLPFEISLKIFNYLQFEDIINSLGVSQNWNKIIRKS-TSLWKKLLISENFVSPKGF 71
Query: 68 DLLS 71
+ L+
Sbjct: 72 NSLN 75
>1p22_A F-BOX/WD-repeat protein 1A; ubiquitination, degradation,
signaling protein; HET: SEP; 2.95A {Homo sapiens} SCOP:
a.158.1.1 b.69.4.1
Length = 435
Score = 45.0 bits (107), Expect = 1e-05
Identities = 19/87 (21%), Positives = 33/87 (37%), Gaps = 6/87 (6%)
Query: 8 EIISHLPEHILELLFSYLDLTDIRNCMLVCKKWYTLLCNEKNEVWRVHCLRFMSENVIKS 67
+ H+ E+IL SYLD + LVCK+WY + + +W+ R + + +
Sbjct: 17 RGLDHIAENIL----SYLDAKSLCAAELVCKEWYRVTSD--GMLWKKLIERMVRTDSLWR 70
Query: 68 DLLSSLSTYKAKLRAYFHSWNPNDCSR 94
L + + N S
Sbjct: 71 GLAERRGWGQYLFKNKPPDGNAPPNSF 97
>2ovr_B FBW7, F-BOX/WD repeat protein 7, F-box PROT; WD40 domains, double
phosphorylation, transcription-C complex; HET: TPO;
2.50A {Homo sapiens} SCOP: a.158.1.1 b.69.4.1 PDB:
2ovp_B* 2ovq_B*
Length = 445
Score = 41.9 bits (99), Expect = 1e-04
Identities = 10/46 (21%), Positives = 19/46 (41%)
Query: 10 ISHLPEHILELLFSYLDLTDIRNCMLVCKKWYTLLCNEKNEVWRVH 55
IS LP+ + + S+L+ D+ C+ W L + +
Sbjct: 19 ISLLPKELALYVLSFLEPKDLLQAAQTCRYWRILAEDNLLWREKCK 64
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 37.7 bits (87), Expect = 0.004
Identities = 48/267 (17%), Positives = 85/267 (31%), Gaps = 100/267 (37%)
Query: 15 EHILELLF-----SYLDLTDIRNCMLVCKKWYTLLCNEKNEVWRVHCL-------RFMS- 61
+ +L L YL+ DI L LL + + L R M+
Sbjct: 81 DQVLNLCLTEFENCYLEGNDIH--ALAA----KLLQENDTTLVKTKELIKNYITARIMAK 134
Query: 62 ---ENVIKSDLLSSLSTYKAKLRAYF----HSWNPNDCS---RNVY----------IKPN 101
+ S L ++ A+L A F N +D R++Y IK +
Sbjct: 135 RPFDKKSNSALFRAVGEGNAQLVAIFGGQG---NTDDYFEELRDLYQTYHVLVGDLIKFS 191
Query: 102 GFTLHRNPVAQSTDAVRGKMGFYQGRHAWEVFW-QGP--------LGTVAV--VGIATKD 150
TL + + DA + F QG + E W + P L ++ + I
Sbjct: 192 AETL-SELIRTTLDAEKV---FTQGLNILE--WLENPSNTPDKDYLLSIPISCPLIG--- 242
Query: 151 ALLQ---------SHGY--------------------LALIGSDSESWGWNIVDN----- 176
++Q G+ A+ ++++SW + +
Sbjct: 243 -VIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWE-SFFVSVRKAI 300
Query: 177 RIL-HNG-ESQGSYPQLNNPPKWEKES 201
+L G +YP + PP ++S
Sbjct: 301 TVLFFIGVRCYEAYPNTSLPPSILEDS 327
Score = 37.7 bits (87), Expect = 0.004
Identities = 37/249 (14%), Positives = 67/249 (26%), Gaps = 75/249 (30%)
Query: 14 PEHILELLFSYLDLTDIRNCMLVCKKWYTLLCNEKNEVWRVHCLR---------FMSENV 64
P EL+ +L + L L ++ N
Sbjct: 54 PTTPAELVGKFLGYV-------------SSLVEPSKVGQFDQVLNLCLTEFENCYLEGND 100
Query: 65 IKS---DLLSSLSTYKAK----LRAYFHSWNPNDCSRNVYIKPNGFTLHRNPVAQSTDAV 117
I + LL T K ++ Y +R + +P + + ++
Sbjct: 101 IHALAAKLLQENDTTLVKTKELIKNYIT-------ARIMAKRPFD-KKSNSALFRA--VG 150
Query: 118 RGKMGFY-----QG---------RHAWEVFWQGPLGTVAVVGIATKDALLQSHGYLALIG 163
G QG R ++ + +G + I L L
Sbjct: 151 EGNAQLVAIFGGQGNTDDYFEELRDLYQTY-HVLVGDL----IKFSAETLSE---LIRTT 202
Query: 164 SDSESW---GWNIVDNRILHNGESQGSYPQLNNPPKWEKESGLSWTV--MTALYPLRRTM 218
D+E G NI++ L N + L + P +S + + L T
Sbjct: 203 LDAEKVFTQGLNILE--WLENPSNTPDKDYLLSIP-------ISCPLIGVIQLAHYVVTA 253
Query: 219 SSLGWHSED 227
LG+ +
Sbjct: 254 KLLGFTPGE 262
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 35.6 bits (81), Expect = 0.016
Identities = 15/94 (15%), Positives = 39/94 (41%), Gaps = 11/94 (11%)
Query: 11 SHLPEHILELLFSYLDLTDIRNCMLVCKKWYTLL-CNEKNEVWRVHCLRFMSENVIKSDL 69
+H+P +L L++ + +D+ + K Y+L+ K + + E +K +
Sbjct: 385 AHIPTILLSLIWFDVIKSDVMVVVNKLHK-YSLVEKQPKESTISIPSIYL--ELKVKLEN 441
Query: 70 LSSLSTYKAKLRAY--FHSWNPNDCSRNV---YI 98
+L +++ + Y +++ +D Y
Sbjct: 442 EYAL--HRSIVDHYNIPKTFDSDDLIPPYLDQYF 473
>3kb5_A Tripartite motif-containing protein 72; B30.2, gustavus, SPRY,
TRIM21, TRIM72, PRY, high resolution, Mg53; 1.50A {Homo
sapiens}
Length = 193
Score = 32.2 bits (74), Expect = 0.10
Identities = 11/62 (17%), Positives = 18/62 (29%), Gaps = 9/62 (14%)
Query: 117 VRGKMGFYQGRHAWEVFWQGPLGTVAVVGIATKDA-------LLQSHGYLALIGSDSESW 169
V +G H WEV +G+ +A + S G L + +
Sbjct: 57 VVAHQQLSEGEHYWEVDVGD--KPRWALGVIAAEAPRRGRLHAVPSQGLWLLGLREGKIL 114
Query: 170 GW 171
Sbjct: 115 EA 116
>2vok_A 52 kDa RO protein; polymorphism, immune system, metal-binding,
tripartite motif (TRIM) protein, SPRY systemic lupus
erythematosus, zinc, B30.2; 1.30A {Mus musculus} PDB:
2vol_B* 2iwg_B*
Length = 188
Score = 28.7 bits (65), Expect = 1.7
Identities = 10/64 (15%), Positives = 16/64 (25%), Gaps = 9/64 (14%)
Query: 116 AVRGKMGFYQGRHAWEVFWQGPLGTVAVVGIATKDA-------LLQSHGYLALIGSDSES 168
V G F G+ WEV +G+ L +G+ +
Sbjct: 52 MVLGAQRFSSGKMYWEVDVTQ--KEAWDLGVCRDSVQRKGQFSLSPENGFWTIWLWQDSY 109
Query: 169 WGWN 172
Sbjct: 110 EAGT 113
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.4 bits (62), Expect = 1.7
Identities = 8/38 (21%), Positives = 16/38 (42%), Gaps = 17/38 (44%)
Query: 198 EKESGLSWTVMTALYPLRRTMSSLGWHSEDCQTKYSTP 235
EK++ L++ +SL +++D S P
Sbjct: 18 EKQA------------LKKLQASLKLYADD-----SAP 38
>2wl1_A Pyrin, marenostrin; amyloidosis, polymorphism, cytoskeleton,
actin-binding inflammatory response, metal-binding,
signaling protein; 1.35A {Homo sapiens}
Length = 191
Score = 28.3 bits (64), Expect = 2.0
Identities = 8/17 (47%), Positives = 8/17 (47%)
Query: 116 AVRGKMGFYQGRHAWEV 132
V G F GR WEV
Sbjct: 56 IVLGSPSFLSGRRYWEV 72
>2fbe_A Predicted: similar to RET finger protein-like 1; dimer, jellyroll
beta-sandwich fold, unknown function; 2.52A {Homo
sapiens} SCOP: b.29.1.22
Length = 201
Score = 27.9 bits (63), Expect = 2.7
Identities = 12/36 (33%), Positives = 14/36 (38%), Gaps = 2/36 (5%)
Query: 116 AVRGKMGFYQGRHAWEVFWQGPLGTVAVVGIATKDA 151
V G F GRH WEV V VG+ +
Sbjct: 53 CVLGTPRFTSGRHYWEVDVGT--SQVWDVGVCKESV 86
>2lm3_A TRIM5alpha, tripartite motif-containing protein 5; ligase; NMR
{Macaca mulatta}
Length = 208
Score = 28.1 bits (63), Expect = 2.8
Identities = 13/101 (12%), Positives = 25/101 (24%), Gaps = 10/101 (9%)
Query: 116 AVRGKMGFYQGRHAWEVFWQGPLGTVAVVGIATKDALLQSHGYLALIGSDSESWGWNIVD 175
V G G+H WEV + ++G+ + + W I
Sbjct: 62 GVLGSQSITSGKHYWEVDVSK--KSAWILGVCAGFQSDAMYNIEQNENYQPKYGYWVI-- 117
Query: 176 NRILHNGESQGSYPQLNNPPKWEKESGLSWTVMTALYPLRR 216
G +G + ++ + R
Sbjct: 118 ------GLQEGVKYSVFQDGSSHTPFAPFIVPLSVIICPDR 152
>3uv9_A TRIM5alpha, tripartite motif-containing protein 5; domain SWAP,
antiretroviral, HIV capsid, ligase; 1.55A {Macaca
mulatta}
Length = 186
Score = 27.2 bits (61), Expect = 4.2
Identities = 7/17 (41%), Positives = 8/17 (47%)
Query: 116 AVRGKMGFYQGRHAWEV 132
V G G+H WEV
Sbjct: 40 GVLGSQSITSGKHYWEV 56
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.320 0.134 0.445
Gapped
Lambda K H
0.267 0.0523 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,279,731
Number of extensions: 233597
Number of successful extensions: 452
Number of sequences better than 10.0: 1
Number of HSP's gapped: 441
Number of HSP's successfully gapped: 34
Length of query: 271
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 179
Effective length of database: 4,133,061
Effective search space: 739817919
Effective search space used: 739817919
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (25.8 bits)