RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14552
(290 letters)
>3ei3_A DNA damage-binding protein 1; UV-damage, DDB, nucleotide excision
repair, xeroderma pigmentosum, cytoplasm, DNA repair;
HET: DNA PG4; 2.30A {Homo sapiens} PDB: 3ei1_A* 3ei2_A*
3ei4_A* 4a0l_A* 3e0c_A* 3i7k_A* 3i7h_A* 3i7l_A* 3i7n_A*
3i7o_A* 3i7p_A* 3i89_A* 3i8c_A* 3i8e_A* 2b5l_A 2b5m_A
2hye_A* 4a11_A* 4a0k_C* 4a0a_A* ...
Length = 1158
Score = 132 bits (333), Expect = 7e-35
Identities = 67/289 (23%), Positives = 106/289 (36%), Gaps = 62/289 (21%)
Query: 1 EFDAYIVVSFSNATLVLSI-GETVEEVSGSGFYGTTPTLCCSAMGDNSIVQVYPDGIRHI 59
E D +V+SF T VL + GE VEE GF T C + ++Q+ +R +
Sbjct: 438 ETDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRLV 497
Query: 60 GAKNTTWKVSDKKESDKKKIVRCAVNQRQIVIALQGGRLIYFEMHPVSDKKESDKKKIVR 119
+ VS+ KE K I + N Q+V+A+
Sbjct: 498 SQEPKA-LVSEWKEPQAKNISVASCNSSQVVVAV-------------------------- 530
Query: 120 CAVNQRQIVIALQGGRLIYFEMHPETGILDECSETIQMESEVLCMALSNAPSGEQMSRFL 179
G L Y ++HP+ +ME EV C+ ++ +S
Sbjct: 531 -------------GRALYYLQIHPQE---LRQISHTEMEHEVACLDITPLGDSNGLSPLC 574
Query: 180 AVGL-ADNTVRLISLAPQDCLKQKNLQGLPDLAESLVMIEMGASDPTSSDEPAGPVTLGN 238
A+GL D + R++ L P L K + G + S++M +
Sbjct: 575 AIGLWTDISARILKL-PSFELLHKEMLGGEIIPRSILMTTFE----------------SS 617
Query: 239 LYLYVGLQNGALLRMVVDQTSGDLSDNRMRYLGSRPVKLFKIRCQGNEA 287
YL L +GAL ++ +G LSD + LG++P L R
Sbjct: 618 HYLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFRSLSTTN 666
>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 = 47.7 bits (113), Expect = 2e-06
Identities = 55/316 (17%), Positives = 95/316 (30%), Gaps = 135/316 (42%)
Query: 9 SFSNATLVLSIGETVEEVSGSGFYGTTPTLCCSAMGDNSIVQVYPDGIRHIGAKNTTWKV 68
++ N +L SI E E G +P L S + + QV ++ N+
Sbjct: 313 AYPNTSLPPSILEDSLEN-NEG--VPSPMLSISNL---TQEQV----QDYVNKTNSHLPA 362
Query: 69 SDKKESDKKKIVRCAVNQRQIVIALQGGRLIYFEMHPVSDKKESDKKKIVRCAVNQRQIV 128
+Q+ I+L G + +V
Sbjct: 363 G-----------------KQVEISLVNGA---------------------------KNLV 378
Query: 129 IALQGGRLIYFEMHPETGILDECSETIQMESEVLCMALSN--APSG-EQ----MS----- 176
++ G P++ L L + L APSG +Q S
Sbjct: 379 VS--G--------PPQS--L-----------YGLNLTLRKAKAPSGLDQSRIPFSERKLK 415
Query: 177 ---RFLAVG-------LADNTVRL--------ISLAPQDCLK--------QKNLQGL-PD 209
RFL V L + + +S +D ++ +L+ L
Sbjct: 416 FSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKD-IQIPVYDTFDGSDLRVLSGS 474
Query: 210 LAESLV-MIEMGASDP----TSSDEPA------GP-VTLGNLYLYVGLQNGALLRMVVDQ 257
++E +V I P T++ A GP G L ++G +R++V
Sbjct: 475 ISERIVDCI---IRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIV-- 529
Query: 258 TSGDLSDNRMRYLGSR 273
+G L N G +
Sbjct: 530 -AGTLDINPDDDYGFK 544
Score = 40.4 bits (94), Expect = 7e-04
Identities = 21/101 (20%), Positives = 38/101 (37%), Gaps = 19/101 (18%)
Query: 1 EFDAYIVVSFSNATLVLSIGETVEEVSGSGFY-GTTPTLCC----SAMGDNSIVQVYPDG 55
E+ A + S ++ V+SI VE V FY G T + + ++ + P
Sbjct: 1766 EYAA--LASLAD---VMSIESLVEVV----FYRGMTMQVAVPRDELGRSNYGMIAINPGR 1816
Query: 56 IRHIGAKNTTWKVSDKKESDKKKIVRCAVN----QRQIVIA 92
+ ++ V ++ +V VN +Q V A
Sbjct: 1817 VAASFSQEALQYVVERVGKRTGWLV-EIVNYNVENQQYVAA 1856
Score = 39.6 bits (92), Expect = 0.001
Identities = 51/337 (15%), Positives = 95/337 (28%), Gaps = 102/337 (30%)
Query: 15 LVLSIG--ETVEEVSGS----------GFYGTTPTLCCSAMGDN---SIVQVYPDGIRHI 59
L LS G E V V + F P D+ + ++ + ++
Sbjct: 9 LTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYV 68
Query: 60 GAKNTTWKVSDKKESDKKKIVRCAVN--QRQIVIALQGGRLIYFEMH-------PVSDKK 110
+ V K +++ + + L+G ++H +D
Sbjct: 69 SSL-----VEPSKVGQFDQVLNLCLTEFENCY---LEGN-----DIHALAAKLLQENDTT 115
Query: 111 ESDKKKIVRC----------------------AVNQRQI-VIAL---QGGRLIYF-EM-- 141
K++++ AV + ++A+ QG YF E+
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRD 175
Query: 142 -----HPETG-ILDECSETIQMESEVLCMALSNAPSGEQMSRFLAVGLADNTVR------ 189
H G ++ +ET+ A G + +L +N
Sbjct: 176 LYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWL-----ENPSNTPDKDY 230
Query: 190 LISLAPQDCLKQKNLQGLPDLAESLVMIEMGASDPTS-SDEPAGPVTLGNLYLYVGLQNG 248
L+S P C L G+ LA +V ++ P G GL
Sbjct: 231 LLS-IPISC----PLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQ-----GLVTA 280
Query: 249 ALLRMVVDQTSGDLSDNRMRYLGSRPVKLFKI--RCQ 283
+ + + + + LF I RC
Sbjct: 281 VAIAET--DSWESFFVSVRKAITV----LFFIGVRCY 311
Score = 36.2 bits (83), Expect = 0.011
Identities = 30/172 (17%), Positives = 51/172 (29%), Gaps = 49/172 (28%)
Query: 18 SIGETVEEVSGSGFYGTTPTLCCSAMGDNSIVQVYP--DGIR--HI-GAKNTTWKVSDKK 72
S+GE Y L A V + G T +
Sbjct: 1763 SLGE----------YAA---LASLA-------DVMSIESLVEVVFYRG--MTMQVAVPRD 1800
Query: 73 ESDKKKIVRCAVNQRQIVIALQGGRLIYFEMHPVSDKKESDKKKIVRCAVN----QRQIV 128
E + A+N ++ + L Y V ++ +V VN +Q V
Sbjct: 1801 ELGRSNYGMIAINPGRVAASFSQEALQY-----VVERVGKRTGWLV-EIVNYNVENQQYV 1854
Query: 129 IALQGGRLIYFEMHPETGILDEC-SETIQMESEVLCMALSNAPSGEQMSRFL 179
A G L + T +L+ + I + + L + S E++ L
Sbjct: 1855 AA---GDLRALDT--VTNVLNFIKLQKIDI------IELQKSLSLEEVEGHL 1895
Score = 28.1 bits (62), Expect = 4.8
Identities = 21/165 (12%), Positives = 42/165 (25%), Gaps = 53/165 (32%)
Query: 94 QG------GRLIYFEMHPVSDK--KESDKK----------KIVRCAVNQRQIVI--ALQG 133
QG G +Y + + +D IV N + I +
Sbjct: 1624 QGSQEQGMGMDLY-KTSKAAQDVWNRADNHFKDTYGFSILDIVI--NNPVNLTIHFGGEK 1680
Query: 134 GRLIYFEMHPETGILDECSETIQMESEVLCMALSNAPSGEQMSRFLAVGLADNTVRLISL 193
G+ I E + M G+ + + + +++
Sbjct: 1681 GKRIR-ENYSA-------------------MIFETIVDGKLKTEKIFKEINEHSTSYTFR 1720
Query: 194 APQDCLKQ-KNLQGLPDL-AESL----VMIEMGASDPTSSDEPAG 232
+ + L + Q P L + G ++ AG
Sbjct: 1721 SEKGLLSATQFTQ--PALTLMEKAAFEDLKSKGLIPADAT--FAG 1761
>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 = 44.5 bits (104), Expect = 3e-05
Identities = 45/297 (15%), Positives = 90/297 (30%), Gaps = 75/297 (25%)
Query: 1 EFDAYIVVSFSNATLVLSIGETVEEVSGS-----GFYGTTPTLCCSAMGDNSIVQVYPDG 55
FD V + +LS E ++ + S G TL +VQ + +
Sbjct: 32 NFDCKDVQDMPKS--ILSKEE-IDHIIMSKDAVSGTLRLFWTLLSK---QEEMVQKFVEE 85
Query: 56 IRHIGAKNTTWKVSDKKESDKKKIVRCAVNQRQIVIALQGGRLIYFEMHPVSDKKESDKK 115
+ N + +S K ++ +Y E D+ +D +
Sbjct: 86 VL---RINYKFLMSPIKTEQRQP---------------SMMTRMYIEQR---DRLYNDNQ 124
Query: 116 KIVRCAVNQRQIVIALQGGRLIYFEMHPETGILDECSETIQ-M----ESEVLCMALSNAP 170
+ V++ Q + L+ L E+ P + I + ++ +AL
Sbjct: 125 VFAKYNVSRLQPYLKLRQA-L--LELRPAKNV------LIDGVLGSGKT---WVALDVCL 172
Query: 171 SGEQMSRFLAVGLADNTVRLISLA----PQDCLKQKNLQGLPDLAESLVMIEMGASDPTS 226
S + + D + ++L P+ L+ LQ L + S
Sbjct: 173 SYKVQCKM------DFKIFWLNLKNCNSPETVLEM--LQKLLYQIDPNWTSRSDHSSNIK 224
Query: 227 SDEPAGPVTLGNLYLYVGLQNGALLRMVVDQTSGDLSDNRMRYLGSRPVKLFKIRCQ 283
+ L L +N LL V+ ++ + + F + C+
Sbjct: 225 LRIHSIQAELRRLLKSKPYEN-CLL--VLL----NVQNAKA-------WNAFNLSCK 267
>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 = 31.8 bits (73), Expect = 0.21
Identities = 9/49 (18%), Positives = 17/49 (34%), Gaps = 4/49 (8%)
Query: 158 ESEVLCMALSNAPSGEQMSRFLAVGLADNTVRLISLAPQDCLKQKNLQG 206
+ A + LAV + +R+I+ C+ K+ G
Sbjct: 69 DENFYTCAWT--YDSNTSHPLLAVAGSRGIIRIINPITMQCI--KHYVG 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 = 31.1 bits (69), Expect = 0.23
Identities = 10/29 (34%), Positives = 13/29 (44%), Gaps = 10/29 (34%)
Query: 200 KQ--KNLQG-L----PDLAESLVM---IE 218
KQ K LQ L D A +L + +E
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIKATME 47
>3gre_A Serine/threonine-protein kinase VPS15; seven-bladed propeller, WD
repeat, scaffold protein, ATP- binding, endosome, golgi
apparatus; 1.80A {Saccharomyces cerevisiae}
Length = 437
Score = 31.7 bits (72), Expect = 0.28
Identities = 9/84 (10%), Positives = 22/84 (26%), Gaps = 6/84 (7%)
Query: 144 ETGILDECSETIQMESEVLCMALSNAPSGEQMSRFLAVGLADNTVRLISLAPQDCLKQKN 203
G + S T S V + + P+ + AV D + ++ + +
Sbjct: 97 IVGEVYSSSLTYDCSSTVTQITMI--PNFDA----FAVSSKDGQIIVLKVNHYQQESEVK 150
Query: 204 LQGLPDLAESLVMIEMGASDPTSS 227
+ + +
Sbjct: 151 FLNCECIRKINLKNFGKNEYAVRM 174
>4a11_B DNA excision repair protein ERCC-8; DNA binding protein, DNA damage
repair; HET: DNA; 3.31A {Homo sapiens}
Length = 408
Score = 30.7 bits (70), Expect = 0.51
Identities = 15/63 (23%), Positives = 22/63 (34%), Gaps = 8/63 (12%)
Query: 144 ETGILDECSETIQMESEVLCMALSNAPSGEQMSRFLAVGLADNTVRLISLAPQDCLKQKN 203
T + ++ E V +S P + +AVG V+L L C
Sbjct: 130 NTL---QTADVFNFEETVYSHHMS--PVSTK-HCLVAVGTRGPKVQLCDLKSGSCS--HI 181
Query: 204 LQG 206
LQG
Sbjct: 182 LQG 184
>2vdu_B TRNA (guanine-N(7)-)-methyltransferase- associated WD repeat
protein TRM82; S-adenosyl-L-methionine, tRNA processing,
phosphorylation, M7G, spout MT, WD repeat; 2.40A
{Saccharomyces cerevisiae}
Length = 450
Score = 30.8 bits (69), Expect = 0.56
Identities = 8/59 (13%), Positives = 22/59 (37%), Gaps = 7/59 (11%)
Query: 159 SEVLCMALSNAPSGEQMSRFLAVGLADNTVRL--ISLAPQDCLKQKNLQGLPDLAESLV 215
S + + L+ SR +A +D ++ + + ++ LK + ++
Sbjct: 103 SYIRNLRLT--SDE---SRLIACADSDKSLLVFDVDKTSKNVLKLRKRFCFSKRPNAIS 156
>3lrv_A PRE-mRNA-splicing factor 19; PRP19, WD40, E3 ubiquitin ligase,
spliceosome, DNA damage, D repair, mRNA processing,
nucleus; 2.60A {Saccharomyces cerevisiae}
Length = 343
Score = 29.3 bits (65), Expect = 1.6
Identities = 7/53 (13%), Positives = 16/53 (30%), Gaps = 6/53 (11%)
Query: 154 TIQMESEVLCMALSNAPSGEQMSRFLAVGLADNTVRLISLAPQDCLKQKNLQG 206
+ + + E L LA+ D + + +L+ D +
Sbjct: 166 SAKSDVEYSSGVLH--KDS----LLLALYSPDGILDVYNLSSPDQASSRFPVD 212
>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 = 28.7 bits (65), Expect = 2.3
Identities = 11/48 (22%), Positives = 17/48 (35%), Gaps = 10/48 (20%)
Query: 144 ETGILDECSETIQM-ESEVLCMALSNAPSGEQMSRFLAVGLADNTVRL 190
T + M + V+ A + PSG +A G DN +
Sbjct: 94 FTT---NKEHAVTMPCTWVMACAYA--PSG----CAIACGGLDNKCSV 132
>3odt_A Protein DOA1; ubiquitin, nuclear protein; HET: MSE MES; 1.35A
{Saccharomyces cerevisiae}
Length = 313
Score = 28.6 bits (65), Expect = 2.3
Identities = 12/64 (18%), Positives = 24/64 (37%), Gaps = 11/64 (17%)
Query: 144 ETGILDECSETIQM-ESEVLCMALSNAPSGEQMSRFLAVGLADNTVRLISLAPQDCLKQK 202
E G + I + + + +G+ + VG +DN VR+ S +
Sbjct: 254 ENG---SLKQVITLPAISIWSVDCM--SNGD-----IIVGSSDNLVRIFSQEKSRWASED 303
Query: 203 NLQG 206
++G
Sbjct: 304 EIKG 307
>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 = 28.3 bits (64), Expect = 2.8
Identities = 2/48 (4%), Positives = 6/48 (12%), Gaps = 10/48 (20%)
Query: 144 ETGILDECSETIQM-ESEVLCMALSNAPSGEQMSRFLAVGLADNTVRL 190
+ L S + + +
Sbjct: 96 QYT---GAHAIAGRHTPGTFTNQLQ--TSF----SEPRLLILTDPRTD 134
>2pm9_A Protein WEB1, protein transport protein SEC31; beta propeller;
3.30A {Saccharomyces cerevisiae}
Length = 416
Score = 28.5 bits (64), Expect = 3.1
Identities = 6/48 (12%), Positives = 20/48 (41%), Gaps = 6/48 (12%)
Query: 143 PETGILDECSETIQMESEVLCMALSNAPSGEQMSRFLAVGLADNTVRL 190
++ ++Q++S+ + S + + +A L + ++ L
Sbjct: 52 LLAADSEKPIASLQVDSKFNDLDWS--HNN----KIIAGALDNGSLEL 93
>3zwl_B Eukaryotic translation initiation factor 3 subuni; 2.20A
{Saccharomyces cerevisiae}
Length = 369
Score = 28.0 bits (63), Expect = 3.6
Identities = 10/58 (17%), Positives = 18/58 (31%), Gaps = 9/58 (15%)
Query: 144 ETGILDECSETIQM-ESEVLCMALSNAPSGEQMSRFLAVGLADNTVRLISLAPQDCLK 200
E ++I + E + M S P + D L+ ++ LK
Sbjct: 205 SNN--YEYVDSIDLHEKSISDMQFS--PDL----TYFITSSRDTNSFLVDVSTLQVLK 254
>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 = 27.9 bits (63), Expect = 3.6
Identities = 12/48 (25%), Positives = 18/48 (37%), Gaps = 10/48 (20%)
Query: 144 ETGILDECSETIQM-ESEVLCMALSNAPSGEQMSRFLAVGLADNTVRL 190
T I + S V+ A + PSG ++A G DN +
Sbjct: 85 YTT---NKVHAIPLRSSWVMTCAYA--PSG----NYVACGGLDNICSI 123
>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 = 28.3 bits (63), Expect = 3.8
Identities = 7/49 (14%), Positives = 15/49 (30%), Gaps = 8/49 (16%)
Query: 158 ESEVLCMALSNAPSGEQMSRFLAVGLADNTVRLISLAPQDCLKQKNLQG 206
S + S P + L+ V L ++ + + +G
Sbjct: 840 HSTIQYCDFS--PYD----HLAVIALSQYCVELWNIDSRLKVAD--CRG 880
Score = 27.9 bits (62), Expect = 4.6
Identities = 11/43 (25%), Positives = 18/43 (41%), Gaps = 6/43 (13%)
Query: 158 ESEVLCMALSNAPSGEQMSRFLAVGLADNTVRLISLAPQDCLK 200
E++V C LS P ++A G D +++I L
Sbjct: 961 EAQVSCCCLS--PHL----EYVAFGDEDGAIKIIELPNNRVFS 997
>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 = 27.9 bits (63), Expect = 4.0
Identities = 7/33 (21%), Positives = 11/33 (33%), Gaps = 6/33 (18%)
Query: 158 ESEVLCMALSNAPSGEQMSRFLAVGLADNTVRL 190
+E+ +A S +G FL V
Sbjct: 491 PAEITSVAFS--NNG----AFLVATDQSRKVIP 517
Score = 27.5 bits (62), Expect = 6.6
Identities = 8/52 (15%), Positives = 14/52 (26%), Gaps = 6/52 (11%)
Query: 158 ESEVLCMALSNAPSGEQMSRFLAVGLADNTVRLISLAPQDCLKQKNLQGLPD 209
+ S PSG + A G VR+ + + +
Sbjct: 59 SHQTTVAKTS--PSG----YYCASGDVHGNVRIWDTTQTTHILKTTIPVFSG 104
Score = 26.8 bits (60), Expect = 9.8
Identities = 12/47 (25%), Positives = 19/47 (40%), Gaps = 7/47 (14%)
Query: 160 EVLCMALSNAPSGEQMSRFLAVGLADNTVRLISLAPQDCLKQKNLQG 206
C+ALS +F+AVG D+ V + L+ + K
Sbjct: 450 NSSCVALS--NDK----QFVAVGGQDSKVHVYKLSGASVSEVK-TIV 489
>2lnu_A Uncharacterized protein; structural genomics, northeast structural
genomics consortiu PSI-biology, protein structure
initiative; NMR {Haloarcula marismortui}
Length = 190
Score = 27.7 bits (61), Expect = 4.0
Identities = 8/38 (21%), Positives = 16/38 (42%)
Query: 239 LYLYVGLQNGALLRMVVDQTSGDLSDNRMRYLGSRPVK 276
+ ++ L D+T+G S + RY+ P +
Sbjct: 97 AFRQAADESRTLFVPFRDKTTGQQSYDGGRYMELEPDR 134
>3vu4_A KMHSV2; beta-propeller fold, protein transport; 2.60A
{Kluyveromyces marxianus} PDB: 4av9_A 4av8_A 4exv_A
Length = 355
Score = 28.1 bits (62), Expect = 4.1
Identities = 10/46 (21%), Positives = 16/46 (34%), Gaps = 6/46 (13%)
Query: 161 VLCMALSNAPSGEQMSRFLAVGLADNTVRLISLAPQDCLKQKNLQG 206
V+ M S LAV T+ + + K+ L+G
Sbjct: 243 VVDMKWST------DGSKLAVVSDKWTLHVFEIFNDQDNKRHALKG 282
>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport
protein; 2.50A {Saccharomyces cerevisiae}
Length = 814
Score = 27.4 bits (61), Expect = 6.5
Identities = 5/43 (11%), Positives = 13/43 (30%), Gaps = 6/43 (13%)
Query: 158 ESEVLCMALSNAPSGEQMSRFLAVGLADNTVRLISLAPQDCLK 200
V + P+ ++ L V + + Q ++
Sbjct: 13 SDRVKGIDFH--PTE----PWVLTTLYSGRVEIWNYETQVEVR 49
>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 = 27.2 bits (61), Expect = 6.6
Identities = 6/46 (13%), Positives = 17/46 (36%), Gaps = 6/46 (13%)
Query: 161 VLCMALSNAPSGEQMSRFLAVGLADNTVRLISLAPQDCLKQKNLQG 206
+ C A + Q +A+ ++ V + + ++ L+
Sbjct: 11 ISCHAWN--KDRTQ----IAICPNNHEVHIYEKSGNKWVQVHELKE 50
>4e54_B DNA damage-binding protein 2; beta barrel, double helix, DDB1:WD40
beta-barrel fold, DNA D DNA repair, HOST-virus
interactions; HET: DNA 3DR; 2.85A {Homo sapiens} PDB:
3ei4_B*
Length = 435
Score = 27.3 bits (61), Expect = 6.8
Identities = 6/33 (18%), Positives = 11/33 (33%), Gaps = 5/33 (15%)
Query: 158 ESEVLCMALSNAPSGEQMSRFLAVGLADNTVRL 190
+ +A P+ +AVG + L
Sbjct: 119 DRRATSLAWH--PTH---PSTVAVGSKGGDIML 146
>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 = 27.2 bits (60), Expect = 7.2
Identities = 4/30 (13%), Positives = 8/30 (26%)
Query: 177 RFLAVGLADNTVRLISLAPQDCLKQKNLQG 206
L V +D V ++ +
Sbjct: 114 PLLLVASSDGKVSVVEFKENGTTSPIIIDA 143
>2aq5_A Coronin-1A; WD40 repeat, 7-bladed beta-propeller, structural
protein; HET: CME; 1.75A {Mus musculus} PDB: 2b4e_A
Length = 402
Score = 27.0 bits (60), Expect = 7.4
Identities = 18/74 (24%), Positives = 28/74 (37%), Gaps = 8/74 (10%)
Query: 120 CAVNQ--RQIVIALQGGRLIYFEMHPETGILDECSETIQ-MESEVLCMALSNAPSGEQMS 176
CAVN ++ GG +TG +D+ + + VL +A P
Sbjct: 40 CAVNPKFMALICEASGGGAFLVLPLGKTGRVDKNVPLVCGHTAPVLDIAWC--PHN---D 94
Query: 177 RFLAVGLADNTVRL 190
+A G D TV +
Sbjct: 95 NVIASGSEDCTVMV 108
>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 = 27.1 bits (61), Expect = 7.5
Identities = 14/48 (29%), Positives = 21/48 (43%), Gaps = 8/48 (16%)
Query: 144 ETGILDECSETIQM-ESEVLCMALSNAPSGEQMSRFLAVGLADNTVRL 190
EC T++ E+EV +A + PSG LA D +V +
Sbjct: 91 NQDDF-ECVTTLEGHENEVKSVAWA--PSG----NLLATCSRDKSVWV 131
>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 = 27.2 bits (61), Expect = 7.9
Identities = 6/33 (18%), Positives = 14/33 (42%), Gaps = 6/33 (18%)
Query: 158 ESEVLCMALSNAPSGEQMSRFLAVGLADNTVRL 190
++ +++S PS ++A G + L
Sbjct: 488 RAKPSYISIS--PSE----TYIAAGDVMGKILL 514
>3ei3_B DNA damage-binding protein 2; UV-damage, DDB, nucleotide excision
repair, xeroderma pigmentosum, cytoplasm, DNA repair;
HET: DNA PG4; 2.30A {Danio rerio} PDB: 3ei1_B* 3ei2_B*
4a08_B* 4a09_B* 4a0a_B* 4a0b_B* 4a0k_D* 4a0l_B*
Length = 383
Score = 26.9 bits (60), Expect = 8.1
Identities = 6/33 (18%), Positives = 11/33 (33%), Gaps = 5/33 (15%)
Query: 158 ESEVLCMALSNAPSGEQMSRFLAVGLADNTVRL 190
+ V + P+ +AVG + L
Sbjct: 73 DRRVTSLEWH--PTHPTT---VAVGSKGGDIIL 100
>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 = 9.1
Identities = 4/30 (13%), Positives = 8/30 (26%)
Query: 177 RFLAVGLADNTVRLISLAPQDCLKQKNLQG 206
L V +D V ++ +
Sbjct: 114 PMLLVASSDGKVSVVEFKENGTTSPIIIDA 143
>1yfq_A Cell cycle arrest protein BUB3; WD repeat WD40 repeat beta
transducin repeat all beta, signaling protein; 1.10A
{Saccharomyces cerevisiae} SCOP: b.69.4.2 PDB: 1u4c_A
2i3s_A 2i3t_A
Length = 342
Score = 26.7 bits (59), Expect = 9.4
Identities = 5/45 (11%), Positives = 16/45 (35%), Gaps = 5/45 (11%)
Query: 150 ECSETIQMESEVLCMALSNAPSGEQMSRFLAVGLADNTVRLISLA 194
+ ++++ + +LC + + VG + + L
Sbjct: 48 DLLQSLRYKHPLLCCNFID-----NTDLQIYVGTVQGEILKVDLI 87
>2oaj_A Protein SNI1; WD40 repeat, beta propeller, endocytosis/exocytosis
complex; 2.40A {Saccharomyces cerevisiae}
Length = 902
Score = 27.1 bits (59), Expect = 9.4
Identities = 9/53 (16%), Positives = 16/53 (30%)
Query: 176 SRFLAVGLADNTVRLISLAPQDCLKQKNLQGLPDLAESLVMIEMGASDPTSSD 228
+ LAV + V L +N DL + + ++ D
Sbjct: 500 TLELAVSIETGDVVLFKYEVNQFYSVENRPESGDLEMNFRRFSLNNTNGVLVD 552
>4aez_A CDC20, WD repeat-containing protein SLP1; cell cycle, KEN-BOX,
D-BOX, APC/C; 2.30A {Schizosaccharomyces pombe}
Length = 401
Score = 26.8 bits (60), Expect = 9.9
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 6/45 (13%)
Query: 158 ESEVLCMALSNAPSGEQMSRFLAVGLADNTVRLISLAPQDCLKQK 202
++ VL ALS P G R L+ +D ++ + D +K+
Sbjct: 349 DTRVLYSALS--PDG----RILSTAASDENLKFWRVYDGDHVKRP 387
>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 = 26.5 bits (59), Expect = 10.0
Identities = 8/48 (16%), Positives = 17/48 (35%), Gaps = 3/48 (6%)
Query: 144 ETGILDECSETIQM-ESEVLCMALSNAPSGEQMSRFLAVGLADNTVRL 190
E + + ++ V +A + PS + +A D V +
Sbjct: 197 EEDGQWKEEQKLEAHSDWVRDVAWA--PSIGLPTSTIASCSQDGRVFI 242
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
0.317 0.134 0.384
Gapped
Lambda K H
0.267 0.0696 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,189,216
Number of extensions: 241782
Number of successful extensions: 647
Number of sequences better than 10.0: 1
Number of HSP's gapped: 636
Number of HSP's successfully gapped: 50
Length of query: 290
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 197
Effective length of database: 4,105,140
Effective search space: 808712580
Effective search space used: 808712580
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: 41 (21.7 bits)
S2: 57 (25.8 bits)