RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10264
(426 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 = 47.7 bits (113), Expect = 7e-06
Identities = 60/362 (16%), Positives = 96/362 (26%), Gaps = 125/362 (34%)
Query: 16 LRRLY--Y-SFVLPILDY-GSILYSSATEPTLKKLNVVHHTGVRLIS-----------GA 60
LR LY Y V ++ + L V G+ ++
Sbjct: 173 LRDLYQTYHVLVGDLIKFSAETLSELIRTTL--DAEKVFTQGLNILEWLENPSNTPDKDY 230
Query: 61 FRTSPIVSI-------LA-------ESGIPPLSVRRN-----------ILAL-------- 87
+ P +S LA G P +R + A+
Sbjct: 231 LLSIP-ISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSW 289
Query: 88 -NYVCNVSRNTTNPAHTVLFHKGPRIQCSKYTKPLRFRVEDLPGVSELNVNSIAKYYLRF 146
++ +V + A TVLF G R + + LP SI + L
Sbjct: 290 ESFFVSVRK-----AITVLFFIGVRCYEA-------YPNTSLP-------PSILEDSLE- 329
Query: 147 APWQVETPRTDYLVTSAKKNLSKEEVVQHFLKFKDQHKFDTLCFTDGSKTSDHTGAAYII 206
E + L + NL++E+V + K + H + +
Sbjct: 330 ---NNEGVPSPML---SISNLTQEQVQDYVNKT-NSHL----------PAGKQVEISLVN 372
Query: 207 GDEVCSMKLNPVCSIFTAELVAIEKCLEKIK-----DLIRTELISELVAIE--------- 252
G + N V S L + L K K D R +
Sbjct: 373 GAK------NLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASP 426
Query: 253 ---KCLEKIKDLIRTELILQNFIICSDSKSSLQALQNVYHASPLVCNIISTIQDIRELGT 309
L DLI +L+ N + +Q VY D+R L
Sbjct: 427 FHSHLLVPASDLINKDLVKNNVSF---NAKDIQI--PVYD--------TFDGSDLRVLSG 473
Query: 310 RV 311
+
Sbjct: 474 SI 475
Score = 47.4 bits (112), Expect = 7e-06
Identities = 74/470 (15%), Positives = 132/470 (28%), Gaps = 172/470 (36%)
Query: 9 WGLRRETLR--RLYYSFVLPILDY--GSIL----YSSATEPT------------------ 42
+ R TL L + ++P + S L EPT
Sbjct: 4 YSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGK 63
Query: 43 --------LKKLNVVHHTGV-RLISGAFRTS--------PIVSILAESGIPPLSVRRNIL 85
++ V V L F + + L + L + ++
Sbjct: 64 FLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELI 123
Query: 86 ALNYV--CNVS-RNTTNPAHTVLFH---KGP-RI------Q--CSKYTKPLR--FR---- 124
NY+ ++ R +++ LF +G ++ Q Y + LR ++
Sbjct: 124 K-NYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHV 182
Query: 125 -VEDL-----PGVSEL--NVNSIAKYY---LRFAPW---QVETPRTDYLVTSAKKNLSKE 170
V DL +SEL K + L W TP DYL++ +S
Sbjct: 183 LVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIP---ISCP 239
Query: 171 --EVVQ--HFLKFKDQHKFDTLCFTDGSK-TSDHTG----AAYI---------------- 205
V+Q H++ F K + H+ A I
Sbjct: 240 LIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKA 299
Query: 206 ------IGDEVCSMKLNPVCSIFTAELVAIEKCLEK----------IKDLIRTELISELV 249
IG V + P S+ +E LE I +L + ++ +
Sbjct: 300 ITVLFFIG--VRCYEAYPNTSL---PPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVN 354
Query: 250 AIEKCLEKIKDLIRTELI--LQNFIICSDSKSSLQAL--------------QN------- 286
L K + L+ +N ++ + SL L Q+
Sbjct: 355 KTNSHLPAGKQ-VEISLVNGAKNLVVSGPPQ-SLYGLNLTLRKAKAPSGLDQSRIPFSER 412
Query: 287 ----------V---YHASPLVCNIISTI-QDIRELGTRVSFFWIPSHLGI 322
V +H S L+ I +D+ + + + + I
Sbjct: 413 KLKFSNRFLPVASPFH-SHLLVPASDLINKDL----VKNNVSFNAKDIQI 457
Score = 43.9 bits (103), Expect = 1e-04
Identities = 47/274 (17%), Positives = 89/274 (32%), Gaps = 86/274 (31%)
Query: 92 NVSRNTTNP-AHTVLF--HKGPRI----QCSKYTKPLRFRVEDLPGVSELNVNSIAKYYL 144
++ N NP T+ F KG RI + + +++ E+N +S +
Sbjct: 1663 DIVIN--NPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTS---Y 1717
Query: 145 RFAPWQVETPRTDY-----LVTS--AKKNLSKEEVVQ-------H-------------FL 177
F + T + + A ++L + ++ H +
Sbjct: 1718 TFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVM 1777
Query: 178 KFKDQHKFDTLCFTDGSKTSDHTGAAYIIGDEVCSM-KLNP--VCSIFTAELVAIEKCLE 234
+ + + F G T +G M +NP V + F+ E A++ +E
Sbjct: 1778 SIESLVE---VVFYRG-MTMQVAVPRDELGRSNYGMIAINPGRVAASFSQE--ALQYVVE 1831
Query: 235 KIKDLIRTELISELVAIEKCLEKIKDLIRTELILQNF------IICSDSKSSLQALQNVY 288
++ RT + E+V N+ + + +L + N
Sbjct: 1832 RVGK--RTGWLVEIV--------------------NYNVENQQYVAAGDLRALDTVTN-- 1867
Query: 289 HASPLVCNIISTIQ--DIRELGTRVSFFWIPSHL 320
V N I +Q DI EL +S + HL
Sbjct: 1868 -----VLNFIK-LQKIDIIELQKSLSLEEVEGHL 1895
Score = 42.3 bits (99), Expect = 3e-04
Identities = 53/273 (19%), Positives = 97/273 (35%), Gaps = 87/273 (31%)
Query: 168 SKEEVVQHFLKF-------KDQHKFDTL------CFTDGS-KTSD-HTGAAYIIGD-EVC 211
+ E+V FL + +FD + F + + +D H AA ++ + +
Sbjct: 56 TPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTT 115
Query: 212 SMKLNPVCSIF--------------------------TAELVAI-------EKCLEKIKD 238
+K + + A+LVAI + E+++D
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRD 175
Query: 239 LIRT--ELISELVAIEKCLEKIKDLIRTELILQNFIICSDSKSSLQALQNV-------YH 289
L +T L+ +L I+ E + +LIRT L + + + L+ L+N Y
Sbjct: 176 LYQTYHVLVGDL--IKFSAETLSELIRTTLDAEKV--FTQGLNILEWLENPSNTPDKDYL 231
Query: 290 AS-PLVCNIISTIQDIRELGTRVSFFWIPSHLGIRENENVDH---AARHCNDVPITKVCI 345
S P+ C +I IQ L + LG E + A H + +T V I
Sbjct: 232 LSIPISCPLIGVIQ----L---AHYVVTAKLLGFTPGELRSYLKGATGHSQGL-VTAVAI 283
Query: 346 SDDYKIQFKKIQLNEWNHSWRDNSTTGQKLTML 378
+ + + W S+ + +T+L
Sbjct: 284 A----------ETDSWE-SFFVSVRKA--ITVL 303
Score = 28.9 bits (64), Expect = 4.4
Identities = 15/48 (31%), Positives = 19/48 (39%), Gaps = 20/48 (41%)
Query: 27 ILDYGSILYSSATEP----TLKKLNVVHH----TGVRLI-SGAFRTSP 65
ILD+G P L L H TGVR+I +G +P
Sbjct: 501 ILDFG---------PGGASGLGVL--THRNKDGTGVRVIVAGTLDINP 537
>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 = 46.8 bits (110), Expect = 1e-05
Identities = 77/555 (13%), Positives = 153/555 (27%), Gaps = 186/555 (33%)
Query: 9 WGLRRETLRRLYYSFVLPIL--DYGSILYSSATEPTLKKLNVVHHTGVRLISGAFRTSPI 66
W L + + FV +L +Y ++ TE + + R + + +
Sbjct: 69 WTLLSKQ-EEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQR--DRLYNDNQV 125
Query: 67 VSILAESGIPPLSVRR--NILAL-NYVCNVSRNTTNPAHTVLFH--KGPRIQCSKYT--- 118
+V R L L + + PA VL G K
Sbjct: 126 --------FAKYNVSRLQPYLKLRQALLELR-----PAKNVLIDGVLG----SGKTWVAL 168
Query: 119 KPLR-FRVEDLP--GVSELNVNS----------IAKYYLRFAPWQVETPRTDYLVTSAKK 165
++V+ + LN+ + + K + P T R+D+ +
Sbjct: 169 DVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDP--NWTSRSDHSSNIKLR 226
Query: 166 NLSKEEVVQHFLKFKDQHK-----------------FDTLC---FTDGSKTSDHTGAAYI 205
S + ++ LK K ++ F+ C T T ++
Sbjct: 227 IHSIQAELRRLLKSK-PYENCLLVLLNVQNAKAWNAFNLSCKILLT----TRFKQVTDFL 281
Query: 206 IGDEVCSMKLNPVCSIFT----AELVAIEKCLE-KIKDLIRTE----------LISELV- 249
+ L+ T L+ K L+ + +DL E +I+E +
Sbjct: 282 SAATTTHISLDHHSMTLTPDEVKSLLL--KYLDCRPQDL-PREVLTTNPRRLSIIAESIR 338
Query: 250 -------------------AIEKCLEKIK-DLIR---------------TELILQNF--- 271
IE L ++ R ++L
Sbjct: 339 DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFD 398
Query: 272 --------IICSDSKSSL---QALQNVYHASPLVCNIISTIQDIRELGTRVSFFWIPSHL 320
++ K SL Q ++ + + +++ L H
Sbjct: 399 VIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL-----------HR 447
Query: 321 GIRENENVDHAARHCNDVPITKVCISDDYKIQF-----KKIQLNE---------WNHSW- 365
I ++ N+ +D+ + D Y K I+ E + +
Sbjct: 448 SIVDHYNI-PKTFDSDDLIPPYL---DQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFL 503
Query: 366 ----RDNSTTGQKLTMLRDTAMTFRL---------PKYAFRM-TIKYNLRKFNKMNGIIH 411
R +ST + +T + PKY + I L K + +I
Sbjct: 504 EQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEEN--LIC 561
Query: 412 GEIT--VQLGKSSEK 424
+ T +++ +E
Sbjct: 562 SKYTDLLRIALMAED 576
Score = 42.1 bits (98), Expect = 4e-04
Identities = 43/315 (13%), Positives = 99/315 (31%), Gaps = 59/315 (18%)
Query: 116 KYTKPLRFR-VEDLPG--VSELNVNSIAKYYLRFAPWQVETPRTDYLVTSAKKNLSKEEV 172
+ + V+D+P +S+ ++ I + V T L + +EE+
Sbjct: 28 AFVDNFDCKDVQDMPKSILSKEEIDHIIM-----SKDAVS--GTLRLFWTLLSK--QEEM 78
Query: 173 VQHFLKFKDQHKFDTLC--FTDGSKTSDHTGAAYIIGDEVCSMKLNPVCSIFTAELVAIE 230
VQ F++ + + L + YI +L +F V+
Sbjct: 79 VQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYI----EQRDRLYNDNQVFAKYNVSRL 134
Query: 231 KCLEKIKDLIRTELISE-LVAIE------K-CLEKIKDLIRTELILQNF---II------ 273
+ K++ + EL V I+ K + D+ + + I
Sbjct: 135 QPYLKLRQALL-ELRPAKNVLIDGVLGSGKTWV--ALDVCLSYKVQCKMDFKIFWLNLKN 191
Query: 274 CSDSKSSLQALQNVYH-ASPLVCNIISTIQDIR----ELGTRVSFFWI----PSHL---- 320
C+ ++ L+ LQ + + P + +I+ + + + L
Sbjct: 192 CNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL 251
Query: 321 GIRENENVDHAARHCNDVPITK-VCISDDYK-IQFKKIQLNEWNHSWRDNSTTGQKLTML 378
++ + + C + T+ ++D I L+ + + T + ++L
Sbjct: 252 NVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTL----TPDEVKSLL 307
Query: 379 RDTAMT--FRLPKYA 391
LP+
Sbjct: 308 LKYLDCRPQDLPREV 322
>3p1g_A Xenotropic murine leukemia virus-related virus (X H domain; XMRV,
RNAse H, reverse transcriptase, transcription; 1.50A
{Xenotropic mulv-related virus} PDB: 3v1q_A 3v1o_A
3v1r_A* 2hb5_A
Length = 165
Score = 39.8 bits (93), Expect = 4e-04
Identities = 29/185 (15%), Positives = 52/185 (28%), Gaps = 51/185 (27%)
Query: 160 VTSAKKNLSKEEVVQHFLKFKDQHKFDTLCFTDGS--KTSDHTGAAYIIGDE---VCSMK 214
+ +L+ + + + +TDGS A + E + +
Sbjct: 7 THGTRPDLTDQPIPDADYTW----------YTDGSSFLQEGQRRAGAAVTTETEVIWARA 56
Query: 215 LNPVCSIFTAELVAIEKCLEKIKDLIRTELISELVAIEKCLEKIKDLIRTELILQNFIIC 274
L S AEL+A+ + L+ + + +
Sbjct: 57 LPAGTSAQRAELIALTQALKMAEG------------------------------KKLNVY 86
Query: 275 SDSKSSLQALQNVYHASPLVC-NIISTIQDIRELGTRVSFFWIPSHLG-----IRENENV 328
+DS+ + + N I + L R+S P H R N
Sbjct: 87 TDSRYAFATAHVHSEGREIKNKNEILALLKALFLPKRLSIIHCPGHQKGNSAEARGNRMA 146
Query: 329 DHAAR 333
D AAR
Sbjct: 147 DQAAR 151
>2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO
enzyme, structural genomics, protein structure
initiative; NMR {Desulfitobacterium hafniense dcb-2}
PDB: 2kw4_A
Length = 147
Score = 35.4 bits (82), Expect = 0.011
Identities = 8/30 (26%), Positives = 14/30 (46%)
Query: 304 IRELGTRVSFFWIPSHLGIRENENVDHAAR 333
+ + SF + +H G N+ VD A+
Sbjct: 103 MNQYRGIYSFEKVKAHSGNEFNDYVDMKAK 132
>3qio_A GAG-POL polyprotein; RNAse H, inhibitor, nuclease, transferase,
hydrolase- complex; HET: QID; 1.40A {Hiv-1 M} PDB:
3qin_A* 3hyf_A* 1o1w_A 3lp3_A* 1hrh_A 3k2p_A* 1rdh_A
Length = 150
Score = 34.5 bits (80), Expect = 0.023
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 310 RVSFFWIPSHLGIRENENVDHAAR 333
+V W+P+H GI NE VD
Sbjct: 119 KVYLAWVPAHKGIGGNEQVDKLVS 142
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo
sapiens} PDB: 2qk9_A 2qkk_A*
Length = 154
Score = 31.4 bits (72), Expect = 0.26
Identities = 8/24 (33%), Positives = 11/24 (45%)
Query: 310 RVSFFWIPSHLGIRENENVDHAAR 333
+ + +P H G NE D AR
Sbjct: 123 DIQWMHVPGHSGFIGNEEADRLAR 146
>2zd1_A Reverse transcriptase/ribonuclease H; P51/P66, hetero dimer, NNRTI,
nonnucleoside inhibitor, AIDS, HIV, rilpivirine,
diarylpyrimidine, DAPY, DNA recombination; HET: T27;
1.80A {Human immunodeficiency virus 1} PDB: 3is9_A*
3irx_A* 2ze2_A* 3bgr_A* 3qlh_A* 3klf_A* 3qo9_A* 1dlo_A
1bqm_A 2be2_A* 1s6q_A* 1s6p_A* 1s9g_A* 1suq_A* 2b5j_A*
2b6a_A* 2ban_A* 1s9e_A* 1hni_A* 1hnv_A* ...
Length = 557
Score = 31.7 bits (72), Expect = 0.46
Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 4/40 (10%)
Query: 291 SPLVCNIISTIQDIRELGTRVSFFWIPSHLGIRENENVDH 330
S LV II + +E +V W+P+H GI NE VD
Sbjct: 517 SELVNQIIEQLIK-KE---KVYLAWVPAHKGIGGNEQVDK 552
>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding,
RNA binding protein; 2.10A {Saccharomyces cerevisiae}
SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A
Length = 400
Score = 31.0 bits (71), Expect = 0.72
Identities = 4/26 (15%), Positives = 13/26 (50%)
Query: 164 KKNLSKEEVVQHFLKFKDQHKFDTLC 189
+ L+ + + Q++ +++ K L
Sbjct: 225 MEELTLKGITQYYAFVEERQKLHCLN 250
>1jl1_A Ribonuclease HI; RNAse HI, protein stability, thermostability,
hydrogen exchange, cooperativity, hydrolase; 1.30A
{Escherichia coli} SCOP: c.55.3.1 PDB: 1f21_A 1jxb_A
1g15_A 1rch_A 1rdd_A 1rnh_A* 2rn2_A 1rda_A 1law_A 1rdb_A
1lav_A 3aa4_A 1rbu_A 1gob_A 1rdc_A 1kvc_A 3aa3_A 3aa2_A
3aa5_X 1rbv_A ...
Length = 155
Score = 30.2 bits (69), Expect = 0.73
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 310 RVSFFWIPSHLGIRENENVDHAAR 333
++ + W+ H G ENE D AR
Sbjct: 115 QIKWEWVKGHAGHPENERADELAR 138
>3iac_A Glucuronate isomerase; IDP02065, structural genom center for
structural genomics of infectious diseases, CSGI; 2.22A
{Salmonella typhimurium}
Length = 473
Score = 30.8 bits (69), Expect = 0.87
Identities = 8/32 (25%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 1 MKILSNRNWGLRRETLRRLYYSFV--LPILDY 30
M ++ L+ + R LY+ + +PI D+
Sbjct: 4 MATFMTEDFLLKNDIARTLYHKYAAPMPIYDF 35
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A
{Shewanella oneidensis} PDB: 2zqb_A
Length = 158
Score = 29.8 bits (68), Expect = 0.89
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 310 RVSFFWIPSHLGIRENENVDHAAR 333
++ + W+ H G ENE D AR
Sbjct: 117 QIDWRWVKGHAGHAENERCDQLAR 140
>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 = 29.9 bits (66), Expect = 0.94
Identities = 8/31 (25%), Positives = 16/31 (51%), Gaps = 8/31 (25%)
Query: 278 KSSLQALQN---VY--HASP-LVCNIISTIQ 302
K +L+ LQ +Y ++P L +T++
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIK--ATME 47
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus
thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Length = 166
Score = 29.9 bits (68), Expect = 0.97
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 310 RVSFFWIPSHLGIRENENVDHAAR 333
RV F ++ H G ENE VD AR
Sbjct: 120 RVRFHFVKGHTGHPENERVDREAR 143
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease,
hydrolase, magnesium, metal-binding; 1.60A
{Chlorobaculum tepidum}
Length = 146
Score = 29.8 bits (68), Expect = 0.99
Identities = 8/24 (33%), Positives = 10/24 (41%)
Query: 310 RVSFFWIPSHLGIRENENVDHAAR 333
RV+F + H N D AR
Sbjct: 116 RVTFHKVKGHSDNPYNSRADELAR 139
>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene
regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19
c.37.1.19 PDB: 1xtj_A* 1xtk_A
Length = 391
Score = 30.2 bits (69), Expect = 1.4
Identities = 7/27 (25%), Positives = 13/27 (48%)
Query: 163 AKKNLSKEEVVQHFLKFKDQHKFDTLC 189
+ L+ + Q+++K KD K L
Sbjct: 216 DETKLTLHGLQQYYVKLKDNEKNRKLF 242
>2e3v_A Neural cell adhesion molecule 1, 140 kDa isoform; NCAM, N-CAM 1,
NCAM-120, CD56 antigen, membra protein, glycoprotein,
structural genomics, NPPSFA; HET: PGE BTB; 1.95A {Homo
sapiens}
Length = 122
Score = 28.6 bits (64), Expect = 1.6
Identities = 11/54 (20%), Positives = 20/54 (37%), Gaps = 11/54 (20%)
Query: 339 PITKVCISDDYKIQFKKIQLNEWNHSWRDNSTTGQKLTM----LR-DTAMTFRL 387
PI YK +++ + W+ W D + + L+ +T RL
Sbjct: 37 PIL------KYKAEWRAVGEEVWHSKWYDAKEASMEGIVTIVGLKPETTYAVRL 84
>2djs_A Ephrin type-B receptor 1; tyrosine-protein kinase receptor EPH-2,
NET, HEK6, ELK, structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: b.1.2.1
Length = 108
Score = 28.2 bits (63), Expect = 1.8
Identities = 10/40 (25%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 348 DYKIQFKKIQLNEWNHSWRDNSTTGQKLTMLR-DTAMTFR 386
DY+I++ + + NE+N S + T ++ LR +
Sbjct: 40 DYEIRYYEKEHNEFNSSMARSQTNTARIDGLRPGMVYVVQ 79
>1epa_A Epididymal retinoic acid-binding protein; 2.10A {Rattus norvegicus}
SCOP: b.60.1.1 PDB: 1epb_A*
Length = 164
Score = 28.8 bits (64), Expect = 2.0
Identities = 14/79 (17%), Positives = 28/79 (35%), Gaps = 2/79 (2%)
Query: 111 RIQCSKYTKPLRFRVEDLPGVSELNVNSI--AKYYLRFAPWQVETPRTDYLVTSAKKNLS 168
++ ++ P +F+V L G E+ V + Y + V + ++
Sbjct: 64 KVTATEGDGPAKFQVTRLSGKKEVVVEATDYLTYAIIDITSLVAGAVHRTMKLYSRSLDD 123
Query: 169 KEEVVQHFLKFKDQHKFDT 187
E + +F K H F
Sbjct: 124 NGEALYNFRKITSDHGFSE 142
>2haz_A N-CAM 1, neural cell adhesion molecule 1; fibronectin type III
repeat, FN1, beta sandwich; 1.70A {Homo sapiens} SCOP:
b.1.2.1
Length = 105
Score = 27.7 bits (62), Expect = 2.5
Identities = 8/39 (20%), Positives = 14/39 (35%), Gaps = 6/39 (15%)
Query: 338 VPITKVCISDDYKIQFKKIQLNEWNHSWRDNSTTGQKLT 376
VPI YK +++ + W+ W D +
Sbjct: 35 VPIL------KYKAEWRAVGEEVWHSKWYDAKEASMEGI 67
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 28.6 bits (65), Expect = 2.7
Identities = 4/25 (16%), Positives = 12/25 (48%)
Query: 165 KNLSKEEVVQHFLKFKDQHKFDTLC 189
L+ + ++ ++++KF L
Sbjct: 3 AGLTTRNIEHAVIQVREENKFSLLK 27
>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug
design, transferase; 2.35A {Human immunodeficiency virus
2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B
Length = 555
Score = 28.5 bits (64), Expect = 4.6
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 4/40 (10%)
Query: 291 SPLVCNIISTIQDIRELGTRVSFFWIPSHLGIRENENVDH 330
S +V II + +E + W+P+H GI N+ VDH
Sbjct: 514 SKIVNQIIEEMIK-KE---AIYVAWVPAHKGIGGNQEVDH 549
>3nme_A Ptpkis1 protein, SEX4 glucan phosphatase; dual specificity
phosphatase, carbohydrate BIND hydrolase; 2.40A
{Arabidopsis thaliana}
Length = 294
Score = 28.2 bits (62), Expect = 5.1
Identities = 10/32 (31%), Positives = 16/32 (50%)
Query: 19 LYYSFVLPILDYGSILYSSATEPTLKKLNVVH 50
+ Y+F+ P L GS L + L+K+ V
Sbjct: 11 MNYNFIRPDLIVGSCLQTPEDVDKLRKIGVKT 42
>3bow_A Calpain-2 catalytic subunit; cysteine protease, inhibitor, cell
membrane, hydrolase, MEMB protease, thiol protease,
phosphoprotein; 2.40A {Rattus norvegicus} PDB: 3df0_A
1df0_A 1u5i_A 1kfu_L 1kfx_L
Length = 714
Score = 28.6 bits (63), Expect = 5.4
Identities = 11/47 (23%), Positives = 19/47 (40%)
Query: 360 EWNHSWRDNSTTGQKLTMLRDTAMTFRLPKYAFRMTIKYNLRKFNKM 406
EW W DN + + +T R F M+ LR ++++
Sbjct: 292 EWTGKWNDNCPSWNTVDPEVRANLTERQEDGEFWMSFSDFLRHYSRL 338
>2bpa_1 Protein (subunit of bacteriophage PHIX174); protein-DNA complex,
single strand, icosahedral virus, virus/DNA complex;
HET: DNA; 3.00A {Enterobacteria phage PHIX174} SCOP:
b.121.5.1 PDB: 1al0_F* 1cd3_F 1m06_F* 1m0f_F 1rb8_F*
Length = 426
Score = 27.9 bits (61), Expect = 6.9
Identities = 14/39 (35%), Positives = 20/39 (51%)
Query: 346 SDDYKIQFKKIQLNEWNHSWRDNSTTGQKLTMLRDTAMT 384
DY F+ +QL +WN + N T + L RD+ MT
Sbjct: 387 HHDYDQCFQSVQLLQWNSQVKFNVTVYRNLPTTRDSIMT 425
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 27.9 bits (63), Expect = 7.5
Identities = 7/31 (22%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 160 VTSAKKNLSKEEVVQHFLKFKD-QHKFDTLC 189
+ + LS E + Q ++ + +HK++ L
Sbjct: 319 IRLKTEELSVEGIKQLYMDCQSEEHKYNVLV 349
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
0.322 0.136 0.405
Gapped
Lambda K H
0.267 0.0543 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,378,701
Number of extensions: 373315
Number of successful extensions: 750
Number of sequences better than 10.0: 1
Number of HSP's gapped: 740
Number of HSP's successfully gapped: 44
Length of query: 426
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 330
Effective length of database: 4,021,377
Effective search space: 1327054410
Effective search space used: 1327054410
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 (21.9 bits)
S2: 59 (26.9 bits)