RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17930
(110 letters)
>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 = 31.6 bits (71), Expect = 0.041
Identities = 24/142 (16%), Positives = 39/142 (27%), Gaps = 57/142 (40%)
Query: 7 GGQGPS-------RS--------VKTLEGSVSNMLVTSCRD------------NICRLWV 39
GGQG + R V L + L R NI W+
Sbjct: 161 GGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILE-WL 219
Query: 40 ET--VLPDD-------------GLINMSQFDPMAAQNPKFIQVTPTLDRDMYNLLQ---- 80
E PD G+I ++ + A K + TP ++ + L+
Sbjct: 220 ENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTA----KLLGFTPG---ELRSYLKGATG 272
Query: 81 CGMDTYLATEGSLVSLSTDISS 102
A ++ + S
Sbjct: 273 HSQGLVTAV---AIAETDSWES 291
>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 = 31.1 bits (69), Expect = 0.042
Identities = 11/67 (16%), Positives = 19/67 (28%), Gaps = 39/67 (58%)
Query: 2 EKADGGGQGPSRSVKTLEGSVSNMLVTSCRDNICRLWVETVLPDDGLINMSQFDPMAAQN 61
EK +++K L+ S+ +L+ D P A
Sbjct: 18 EK---------QALKKLQASL-------------KLYA----DDSA--------PALA-- 41
Query: 62 PKFIQVT 68
I+ T
Sbjct: 42 ---IKAT 45
>1got_B GT-beta; complex (GTP-binding/transducer), G protein, heterotrimer
signal transduction; HET: GDP; 2.00A {Bos taurus} SCOP:
b.69.4.1 PDB: 1b9y_A 1b9x_A* 2trc_B 1tbg_A 1gg2_B*
1omw_B 1gp2_B 1xhm_A 2qns_A 3ah8_B* 3cik_B 3kj5_A
3krw_B* 3krx_B* 3psc_B 3pvu_B* 3pvw_B* 1a0r_B* 2bcj_B*
3sn6_B*
Length = 340
Score = 30.2 bits (69), Expect = 0.098
Identities = 14/45 (31%), Positives = 18/45 (40%), Gaps = 11/45 (24%)
Query: 8 GQGPSRSVKTLEG------SVS----NMLVTSCRDNICRLW-VET 41
+G R + L G N +VTS D C LW +ET
Sbjct: 129 REGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIET 173
Score = 24.8 bits (55), Expect = 6.3
Identities = 8/37 (21%), Positives = 12/37 (32%), Gaps = 11/37 (29%)
Query: 13 RSVKTLEG------SVS-----NMLVTSCRDNICRLW 38
+T G ++ N T D CRL+
Sbjct: 217 MCRQTFTGHESDINAICFFPNGNAFATGSDDATCRLF 253
Score = 24.4 bits (54), Expect = 8.8
Identities = 7/41 (17%), Positives = 15/41 (36%), Gaps = 12/41 (29%)
Query: 13 RSVKTLEG------SVS-----NMLVTSCRDNICRLW-VET 41
V + + + N + DNIC ++ ++T
Sbjct: 88 NKVHAIPLRSSWVMTCAYAPSGNYVACGGLDNICSIYNLKT 128
Score = 24.4 bits (54), Expect = 9.5
Identities = 8/37 (21%), Positives = 18/37 (48%), Gaps = 11/37 (29%)
Query: 13 RSVKTLEG------SV-----SNMLVTSCRDNICRLW 38
R+ +TL G ++ S +L+++ +D +W
Sbjct: 46 RTRRTLRGHLAKIYAMHWGTDSRLLLSASQDGKLIIW 82
>3bg1_A Protein SEC13 homolog; NPC, transport, WD repeat, autocatalytic
cleavage, mRNA transport, nuclear pore complex, nucleus,
phosphoprotein; 3.00A {Homo sapiens} PDB: 3bg0_A
Length = 316
Score = 28.4 bits (64), Expect = 0.40
Identities = 13/46 (28%), Positives = 16/46 (34%), Gaps = 11/46 (23%)
Query: 7 GGQGPSRSVKTLEG------SVS-----NMLVTSCRDNICRLWVET 41
+ S K L VS N+L S DN LW E+
Sbjct: 247 DASSNTWSPKLLHKFNDVVWHVSWSITANILAVSGGDNKVTLWKES 292
>1pgu_A Actin interacting protein 1; WD repeat, seven-bladed
beta-propeller, protein binding; 2.30A {Saccharomyces
cerevisiae} SCOP: b.69.4.1 b.69.4.1 PDB: 1pi6_A
Length = 615
Score = 28.0 bits (63), Expect = 0.70
Identities = 5/35 (14%), Positives = 14/35 (40%)
Query: 4 ADGGGQGPSRSVKTLEGSVSNMLVTSCRDNICRLW 38
+ Q S + +L+ S + + D+ ++
Sbjct: 364 SSSMHQDHSNLIVSLDNSKAQEYSSISWDDTLKVN 398
>1vyh_C Platelet-activating factor acetylhydrolase IB alpha subunit;
lissencephaly, platelet activacting factor, regulator of
cytoplasmic dynein; 3.4A {Mus musculus} SCOP: b.69.4.1
Length = 410
Score = 27.2 bits (61), Expect = 1.1
Identities = 9/37 (24%), Positives = 14/37 (37%), Gaps = 11/37 (29%)
Query: 13 RSVKTLEG------SVS-----NMLVTSCRDNICRLW 38
R +KTL S+ +VT D ++W
Sbjct: 371 RCMKTLNAHEHFVTSLDFHKTAPYVVTGSVDQTVKVW 407
Score = 25.6 bits (57), Expect = 4.5
Identities = 11/39 (28%), Positives = 21/39 (53%), Gaps = 12/39 (30%)
Query: 15 VKTLEG------SVS-----NMLVTSCRDNICRLW-VET 41
++T+ G SVS + +V++ RD ++W V+T
Sbjct: 185 IRTMHGHDHNVSSVSIMPNGDHIVSASRDKTIKMWEVQT 223
Score = 25.2 bits (56), Expect = 5.7
Identities = 8/37 (21%), Positives = 12/37 (32%), Gaps = 11/37 (29%)
Query: 13 RSVKTLEG------SVS-----NMLVTSCRDNICRLW 38
VKT G V ++ + D R+W
Sbjct: 225 YCVKTFTGHREWVRMVRPNQDGTLIASCSNDQTVRVW 261
>3jrp_A Fusion protein of protein transport protein SEC13 and nucleoporin
NUP145; protein complex, cytoplasmic vesicle,
endoplasmic reticulum; 2.60A {Saccharomyces cerevisiae}
Length = 379
Score = 26.9 bits (60), Expect = 1.3
Identities = 11/51 (21%), Positives = 16/51 (31%), Gaps = 11/51 (21%)
Query: 3 KADGGGQGPSRSVKTLEG------SVS-----NMLVTSCRDNICRLWVETV 42
D +++ E S N+L S DN LW E +
Sbjct: 237 TQDNEQGPWKKTLLKEEKFPDVLWRASWSLSGNVLALSGGDNKVTLWKENL 287
>2pbi_B Guanine nucleotide-binding protein subunit beta 5; helix WRAP, RGS
domain, DEP domain, DHEX domain, GGL domain, propeller,
signaling protein; 1.95A {Mus musculus}
Length = 354
Score = 26.7 bits (60), Expect = 1.4
Identities = 9/50 (18%), Positives = 18/50 (36%), Gaps = 12/50 (24%)
Query: 4 ADGGGQGPSRSVKTLEG------SVS-----NMLVTSCRDNICRLW-VET 41
+ + K++ + S ++T+ D C LW VE+
Sbjct: 136 TFDKNENMAAKKKSVAMHTNYLSACSFTNSDMQILTASGDGTCALWDVES 185
Score = 25.2 bits (56), Expect = 5.4
Identities = 8/37 (21%), Positives = 13/37 (35%), Gaps = 11/37 (29%)
Query: 13 RSVKTLEG------SVS-----NMLVTSCRDNICRLW 38
+ V+ E SV + + D CRL+
Sbjct: 231 QCVQAFETHESDVNSVRYYPSGDAFASGSDDATCRLY 267
>2pm7_B Protein transport protein SEC13, protein transport protein SEC31;
beta propeller, alpha solenoid; 2.35A {Saccharomyces
cerevisiae} PDB: 2pm9_B 2pm6_B 3iko_A 3mzk_A 3mzl_A
Length = 297
Score = 26.8 bits (60), Expect = 1.6
Identities = 11/51 (21%), Positives = 16/51 (31%), Gaps = 11/51 (21%)
Query: 3 KADGGGQGPSRSVKTLEG------SVS-----NMLVTSCRDNICRLWVETV 42
D +++ E S N+L S DN LW E +
Sbjct: 235 TQDNEQGPWKKTLLKEEKFPDVLWRASWSLSGNVLALSGGDNKVTLWKENL 285
>3i2n_A WD repeat-containing protein 92; WD40 repeats, structural genomics,
structural genomic consortium, SGC, apoptosis,
transcription; 1.95A {Homo sapiens}
Length = 357
Score = 26.6 bits (59), Expect = 1.6
Identities = 6/30 (20%), Positives = 11/30 (36%), Gaps = 1/30 (3%)
Query: 20 GSVSNMLVTSCRDNICRLW-VETVLPDDGL 48
N LV + + ++ + T P G
Sbjct: 221 DISMNKLVATSLEGKFHVFDMRTQHPTKGF 250
>3jro_A Fusion protein of protein transport protein SEC13 and nucleoporin
NUP145; protein complex, cytoplasmic vesicle,
endoplasmic reticulum, ER-golgi transport, membrane,
mRNA transport; 4.00A {Saccharomyces cerevisiae}
Length = 753
Score = 26.8 bits (59), Expect = 1.8
Identities = 11/50 (22%), Positives = 15/50 (30%), Gaps = 11/50 (22%)
Query: 3 KADGGGQGPSRSVKTLEG------SVS-----NMLVTSCRDNICRLWVET 41
D +++ E S N+L S DN LW E
Sbjct: 235 TQDNEQGPWKKTLLKEEKFPDVLWRASWSLSGNVLALSGGDNKVTLWKEN 284
>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 = 26.7 bits (58), Expect = 2.0
Identities = 10/63 (15%), Positives = 29/63 (46%), Gaps = 6/63 (9%)
Query: 34 ICRLWVETVLPDDGLINMSQFDP--MAAQNPKFIQVTPTLDRDMYNLLQCGMDTYLATEG 91
+ +W + + D ++ +++ + + PK + T ++ +Y L+ ++ A
Sbjct: 392 LSLIWFDVIKSDVMVV-VNKLHKYSLVEKQPK--ESTISIP-SIYLELKVKLENEYALHR 447
Query: 92 SLV 94
S+V
Sbjct: 448 SIV 450
>2hes_X YDR267CP; beta-propeller, WD40 repeat, biosynthetic protein;
1.70A {Saccharomyces cerevisiae}
Length = 330
Score = 26.0 bits (58), Expect = 2.9
Identities = 7/33 (21%), Positives = 12/33 (36%), Gaps = 9/33 (27%)
Query: 15 VKTLEG------SVS---NMLVTSCRDNICRLW 38
+K+L+ S +L T D +L
Sbjct: 7 IKSLKLYKEKIWSFDFSQGILATGSTDRKIKLV 39
>3fm0_A Protein CIAO1; WDR39,SGC,WD40,CIAO1, nucleus, WD repeat,
biosynthetic prote structural genomics, structural
genomics consortium; 1.70A {Homo sapiens}
Length = 345
Score = 25.6 bits (57), Expect = 3.8
Identities = 13/40 (32%), Positives = 16/40 (40%), Gaps = 11/40 (27%)
Query: 10 GPSRSVKTLEG------SVS-----NMLVTSCRDNICRLW 38
V TLEG SV+ N+L T RD +W
Sbjct: 93 DDFECVTTLEGHENEVKSVAWAPSGNLLATCSRDKSVWVW 132
>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 = 25.7 bits (57), Expect = 4.0
Identities = 7/38 (18%), Positives = 15/38 (39%), Gaps = 11/38 (28%)
Query: 15 VKTLEG------SVS----NMLVTSCRDNICRLW-VET 41
+ L G ++ +LV+ D R+W ++
Sbjct: 155 LLQLSGHDGGVWALKYAHGGILVSGSTDRTVRVWDIKK 192
>3iz6_A 40S ribosomal protein SA (S2P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum}
Length = 305
Score = 25.2 bits (56), Expect = 5.2
Identities = 1/46 (2%), Positives = 5/46 (10%), Gaps = 13/46 (28%)
Query: 9 QGPSRSVKTLEG------SVS------NMLVTSCRDNICRLW-VET 41
+ C + ++
Sbjct: 144 GNIPTIAFCDTDSPMRYVDIGIPANNKGKQSIGCLFWLLARMVLQM 189
Score = 25.2 bits (56), Expect = 5.8
Identities = 0/37 (0%), Positives = 4/37 (10%), Gaps = 11/37 (29%)
Query: 13 RSVKTLEG------SVS-----NMLVTSCRDNICRLW 38
+ + + +
Sbjct: 99 GAHAIAGRHTPGTFTNQLQTSFSEPRLLILTDPRTDH 135
>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 = 25.3 bits (56), Expect = 5.3
Identities = 9/39 (23%), Positives = 18/39 (46%), Gaps = 10/39 (25%)
Query: 13 RSVKTLEG------SVS---NMLVTSCRDNICRLW-VET 41
+ ++TL G S N++++ D ++W ET
Sbjct: 150 KCLRTLVGHTGGVWSSQMRDNIIISGSTDRTLKVWNAET 188
>1k8k_C P40, ARP2/3 complex 41 kDa subunit, P41-ARC; beta-propeller,
structural protein; 2.00A {Bos taurus} SCOP: b.69.4.1
PDB: 1tyq_C* 1u2v_C* 2p9i_C* 2p9k_C* 2p9l_C 2p9n_C*
2p9p_C* 2p9s_C* 2p9u_C* 3rse_C 3dxm_C* 3dxk_C
Length = 372
Score = 25.3 bits (56), Expect = 5.7
Identities = 5/43 (11%), Positives = 10/43 (23%), Gaps = 11/43 (25%)
Query: 7 GGQGPSRSVKTLEG------SVS-----NMLVTSCRDNICRLW 38
+ S+ +L D CR++
Sbjct: 127 QENDWWVCKHIKKPIRSTVLSLDWHPNSVLLAAGSCDFKCRIF 169
>3odt_A Protein DOA1; ubiquitin, nuclear protein; HET: MSE MES; 1.35A
{Saccharomyces cerevisiae}
Length = 313
Score = 24.8 bits (55), Expect = 7.0
Identities = 5/30 (16%), Positives = 16/30 (53%)
Query: 9 QGPSRSVKTLEGSVSNMLVTSCRDNICRLW 38
P+ S+ +++ + ++ DN+ R++
Sbjct: 263 TLPAISIWSVDCMSNGDIIVGSSDNLVRIF 292
>3mmy_A MRNA export factor; mRNA export, nuclear protein; HET: MES; 1.65A
{Homo sapiens}
Length = 368
Score = 24.9 bits (55), Expect = 7.0
Identities = 8/35 (22%), Positives = 10/35 (28%), Gaps = 4/35 (11%)
Query: 8 GQGPSRSVKTL----EGSVSNMLVTSCRDNICRLW 38
P S+ L N L+ N R W
Sbjct: 35 TSSPDDSIGCLSFSPPTLPGNFLIAGSWANDVRCW 69
>3k26_A Polycomb protein EED; WD40, structural genomics, NPPSFA, national
project on prote structural and functional analysis,
structural genomics CON SGC; HET: M3L; 1.58A {Homo
sapiens} PDB: 3jzn_A* 3k27_A* 3jpx_A* 3jzg_A* 3jzh_A*
3iiw_A* 3ijc_A* 3iiy_A* 3ij0_A* 3ij1_A* 2qxv_A
Length = 366
Score = 24.9 bits (55), Expect = 7.1
Identities = 7/44 (15%), Positives = 10/44 (22%), Gaps = 13/44 (29%)
Query: 8 GQGPSRSVKTLEG--------SVS-----NMLVTSCRDNICRLW 38
TL S ++L+ C D W
Sbjct: 319 EDPHKAKCTTLTHHKCGAAIRQTSFSRDSSILIAVCDDASIWRW 362
>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase
activation, cytochrome C, procaspase-9, A nucleotide,
cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A*
3iyt_A* 3iza_A*
Length = 1249
Score = 24.8 bits (54), Expect = 9.0
Identities = 1/19 (5%), Positives = 9/19 (47%)
Query: 23 SNMLVTSCRDNICRLWVET 41
+ ++ + ++ + + T
Sbjct: 810 GDKIIVAAKNKVLLFDIHT 828
>4ery_A WD repeat-containing protein 5; WD40, WIN motif, beta propeller,
3-10 helix, lysine methyltransferase, RBBP5, ASH2L, core
complex; 1.30A {Homo sapiens} PDB: 2h6k_A* 2h68_A*
2h6q_A* 3eg6_A 4erq_A 2h6n_A 2gnq_A 2xl2_A 2xl3_A
3uvk_A* 3psl_A* 3uvl_A 3uvm_A 3uvn_A 3uvo_A 2h14_A
2h13_A 3p4f_A 4a7j_A* 2h9l_A ...
Length = 312
Score = 24.3 bits (54), Expect = 9.1
Identities = 10/41 (24%), Positives = 20/41 (48%), Gaps = 12/41 (29%)
Query: 13 RSVKTLEG------SVS-----NMLVTSCRDNICRLW-VET 41
+ +KTL +V +++V+S D +CR+W +
Sbjct: 140 KCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLCRIWDTAS 180
>1nr0_A Actin interacting protein 1; beta propeller, WD40 repeat, ADF,
cofilin, structural genomics, PSI, protein structure
initiative; 1.70A {Caenorhabditis elegans} SCOP:
b.69.4.1 b.69.4.1 PDB: 1pev_A
Length = 611
Score = 24.5 bits (54), Expect = 10.0
Identities = 4/20 (20%), Positives = 9/20 (45%), Gaps = 1/20 (5%)
Query: 23 SNMLVTSCRDNICRLW-VET 41
+ ++ D ++W V T
Sbjct: 251 GTKIASASADKTIKIWNVAT 270
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
0.314 0.131 0.386
Gapped
Lambda K H
0.267 0.0860 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,570,348
Number of extensions: 76278
Number of successful extensions: 283
Number of sequences better than 10.0: 1
Number of HSP's gapped: 283
Number of HSP's successfully gapped: 92
Length of query: 110
Length of database: 6,701,793
Length adjustment: 74
Effective length of query: 36
Effective length of database: 4,635,639
Effective search space: 166883004
Effective search space used: 166883004
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (23.2 bits)