RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9745
(570 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 = 58.5 bits (141), Expect = 4e-09
Identities = 94/542 (17%), Positives = 155/542 (28%), Gaps = 201/542 (37%)
Query: 31 VCCLYISHDRKITKDEI-----YNIKRQLPRPYIICSD---MNAHN-------TIWGGSK 75
L +D + K + + RP+ S+ A I+GG
Sbjct: 105 AAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGG-- 162
Query: 76 IDSNGITKD------EIYNIKRQLPRPYIICSDMNAHNTIWGGSKIDSNGVQVEKFLLEN 129
G T D ++Y L I S L
Sbjct: 163 ---QGNTDDYFEELRDLYQTYHVLVGDLIKFSAE----------------------TLSE 197
Query: 130 DDVCLLNTNEATHFNSSNGTFSAIDLT--LASRSITPDLKWSVHDDLYLMLLVLTDIRQG 187
L+ T + G +++ L + S TPD YL+
Sbjct: 198 ----LIRTTLDAEKVFTQG----LNILEWLENPSNTPD-------KDYLL---------S 233
Query: 188 SSLSGDLCNIATSDLPQYIPTVVSHGMFVDDLAIFMRG-----KDM---------DHIEE 233
+S L I L Y+ T G +L +++G + + D E
Sbjct: 234 IPISCPL--IGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWES 291
Query: 234 TLQNTIQFKENTRYLGLNLDSSLTWKFHI-----EQTKSKSLKALNV------------- 275
F + R ++T F I E + SL +
Sbjct: 292 -------FFVSVR-------KAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSP 337
Query: 276 MKILSNRNWGLRRETLRRLYYSFALPILDYGSILYSSASEPNLKKLNVVHHTGVRLISGA 335
M LS L +E ++ + +++ P K++ + L++G
Sbjct: 338 M--LSIS--NLTQEQVQDY-------------VNKTNSHLPAGKQVEIS------LVNG- 373
Query: 336 FRTSPIVSILAESGIPPLSNLSKREVVHHFLEFKEQHKLDTLCFTDGSKTTDHTGAAFII 395
+ +V SG PP S L + + K LD S+ F
Sbjct: 374 -AKNLVV-----SG-PPQS-L--YGLNLTLRKAKAPSGLDQ------SRIP------FSE 411
Query: 396 RDEICSMKLNPICSIFTAELIAIEKCLEKIKDVVTHDLVTQNFIICSDSKSSLQALQNVY 455
R S + P+ S F + L L D++ DLV N + +Q VY
Sbjct: 412 RKLKFSNRFLPVASPFHSHL------LVPASDLINKDLVKNNVSF---NAKDIQI--PVY 460
Query: 456 H-------------VSPLVCDIISTIQDIR-DLGTRVSFLWI----P---SHLGIRENDN 494
+S + D I ++ + T+ I P S LG+ + N
Sbjct: 461 DTFDGSDLRVLSGSISERIVDCI-IRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRN 519
Query: 495 VD 496
D
Sbjct: 520 KD 521
Score = 43.5 bits (102), Expect = 2e-04
Identities = 62/360 (17%), Positives = 104/360 (28%), Gaps = 146/360 (40%)
Query: 186 QGSSLSGDLCNIATSDLPQYIPTVVSHGMFVD-----DLA--IFMRGKDMD-HIEETLQN 237
QGS Q GM +D A ++ D H ++T
Sbjct: 1624 QGS---------------QEQ------GMGMDLYKTSKAAQDVW---NRADNHFKDTYGF 1659
Query: 238 TIQ--FKENTRYLGLNLDSSLTWKFHIEQTKSKSLKALNVMKILSNRNWGLRRETLRRLY 295
+I N +LT F E K K + RE
Sbjct: 1660 SILDIVINNPV--------NLTIHFGGE--KGKRI-----------------RE------ 1686
Query: 296 YSFALPILDYGSILYSSASEPNLKKLNVVHHTGVRLISGAFR-----------TSP---- 340
+Y ++++ + + LK + S FR T P
Sbjct: 1687 --------NYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTL 1738
Query: 341 ----IVSILAESGIPPLSNLSKREVVHHFL-EFKEQHKLDT-LC-------FTDGSKTTD 387
L G+ P H L E+ L +
Sbjct: 1739 MEKAAFEDLKSKGLIPADAT----FAGHSLGEY-------AALASLADVMSIESLVEVVF 1787
Query: 388 HTGAAF---IIRDEI----CSM-KLNP--ICSIFTAELIAIEKCLEKIKDVVTHDLVTQ- 436
+ G + RDE+ M +NP + + F+ E A++ +E++ T LV +
Sbjct: 1788 YRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQE--ALQYVVERVGKR-TGWLV-EI 1843
Query: 437 -NF------IICSDSKSSLQALQNVYHVSPLVCDIISTIQ--DIRDLGTRVSFLWIPSHL 487
N+ + + +L + N V + I +Q DI +L +S + HL
Sbjct: 1844 VNYNVENQQYVAAGDLRALDTVTN-------VLNFIK-LQKIDIIELQKSLSLEEVEGHL 1895
Score = 40.8 bits (95), Expect = 0.001
Identities = 45/226 (19%), Positives = 70/226 (30%), Gaps = 88/226 (38%)
Query: 177 MLLVLTDIRQGSSLSG-DLCNIATSDLPQ----YIPTVVSHGMFV-----DDLAIF---M 223
ML + +++ Q + N S LP I V V L +
Sbjct: 338 MLSI-SNLTQEQVQDYVNKTN---SHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTL 393
Query: 224 R------GKDMDHIEETLQNTIQFKE-----NTRYL----------------GLNLD--- 253
R G D Q+ I F E + R+L +N D
Sbjct: 394 RKAKAPSGLD--------QSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVK 445
Query: 254 SSLTWK--------FHIE-----QTKSKSLKALNVMKILSNR-NWGLRRETLRRLYYSFA 299
+++++ + + S S+ V I+ W ET + +
Sbjct: 446 NNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKW----ETTTQFKATH- 500
Query: 300 LPILDYGSILYSSASEPNLKKLNVVHH----TGVRLI-SGAFRTSP 340
ILD+G AS L L H TGVR+I +G +P
Sbjct: 501 --ILDFGP---GGAS--GLGVL--THRNKDGTGVRVIVAGTLDINP 537
Score = 40.4 bits (94), Expect = 0.002
Identities = 36/221 (16%), Positives = 68/221 (30%), Gaps = 72/221 (32%)
Query: 290 TLRRLYYSFALPILDYGSI---------LYSSASEPNLKKLNVVHHTGVRLISGAFRTS- 339
+ R L L +GS+ + AS+ L++ F
Sbjct: 5 STRPL-------TLSHGSLEHVLLVPTASFFIASQ--LQE--------------QFNKIL 41
Query: 340 PIVSILAESGIPPLSNLSKREVVHHFLEFKEQHKLDTLCFTDGSKTTDHTGAAFIIRDEI 399
P + + P + E+V FL + + +L D + E
Sbjct: 42 PEPTEGFAADDEPTTPA---ELVGKFLGY-----VSSLVEPSKVGQFDQVLNLCLTEFEN 93
Query: 400 CSMKLNPICSIFTAELIAI-EKCLEKIKDVVT---HDLVTQNFIICSDSKSSL-QA---- 450
C ++ N I + A+L+ + L K K+++ + S S+L +A
Sbjct: 94 CYLEGNDIHA-LAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEG 152
Query: 451 --------------------LQNVYHVS-PLVCDIISTIQD 470
L+++Y LV D+I +
Sbjct: 153 NAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAE 193
Score = 30.8 bits (69), Expect = 1.4
Identities = 31/198 (15%), Positives = 59/198 (29%), Gaps = 80/198 (40%)
Query: 4 SEEITINSPLQVVAARVRSPVLSC----------PLTVCCLYISHDRKITKDEI--YNIK 51
S E P SP+LS + ++ +++ EI N
Sbjct: 327 SLENNEGVP---------SPMLSISNLTQEQVQDYVNKTNSHLPAGKQV---EISLVNG- 373
Query: 52 RQLPRPYIIC---SDMNAHNT----IWGGSKIDSNGIT----KDEIYNIKRQLP--RPY- 97
+ ++ + N S +D + I K + N R LP P+
Sbjct: 374 ---AKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSN--RFLPVASPFH 428
Query: 98 ---------IICSDMNAHNTIWGGSKIDSNGVQVEKFLLENDDVCLLNTNEATHFNSSNG 148
+I D+ +N + I + V +++ +G
Sbjct: 429 SHLLVPASDLINKDLVKNNVSFNAKDI---QIPV--------------------YDTFDG 465
Query: 149 TFSAIDLTLASRSITPDL 166
+ DL + S SI+ +
Sbjct: 466 S----DLRVLSGSISERI 479
>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 = 44.8 bits (106), Expect = 1e-05
Identities = 30/133 (22%), Positives = 47/133 (35%), Gaps = 19/133 (14%)
Query: 379 FTDGSKTTD----HTGAAFIIRDEICSMK-LNPICSIFTAELIAIEKCLEKIKDVVTHDL 433
+TDGS GAA E+ + L S AELIA+ + L+ +
Sbjct: 27 YTDGSSFLQEGQRRAGAAVTTETEVIWARALPAGTSAQRAELIALTQALKMAEG------ 80
Query: 434 VTQNFIICSDSKSSLQALQNVYHVSPLVC-DIISTIQDIRDLGTRVSFLWIPSHLG---- 488
+ + +DS+ + + + I + L R+S + P H
Sbjct: 81 --KKLNVYTDSRYAFATAHVHSEGREIKNKNEILALLKALFLPKRLSIIHCPGHQKGNSA 138
Query: 489 -IRENDNVDHAAR 500
R N D AAR
Sbjct: 139 EARGNRMADQAAR 151
>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 = 46.4 bits (109), Expect = 3e-05
Identities = 84/517 (16%), Positives = 148/517 (28%), Gaps = 150/517 (29%)
Query: 34 LYISHDRKITKDEI----YNIKR------------QL-PRPYII---------------- 60
+YI ++ D YN+ R +L P ++
Sbjct: 111 MYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDV 170
Query: 61 CSD-----MNAHNTIWGGSKIDSNGITKDE-----IYNIKRQLPRPYIICSDMNAHNTIW 110
C W ++ E + + Q+ + SD +++ +
Sbjct: 171 CLSYKVQCKMDFKIFW----LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKL- 225
Query: 111 GGSKIDSNGVQVEKFLLEN---------DDVCLLNTNEATHFNSSNGTFSAIDLTLASRS 161
+I S ++ + L +V N FN S I LT +
Sbjct: 226 ---RIHSIQAELRRLLKSKPYENCLLVLLNVQ--NAKAWNAFNLS----CKILLTTRFKQ 276
Query: 162 ITPDLKWSVHDDLYL--MLLVLTDIRQGSSLSGDLCNIATSDLP----QYIPTVVSHGMF 215
+T L + + L + LT + SL + DLP P +S +
Sbjct: 277 VTDFLSAATTTHISLDHHSMTLTP-DEVKSLLLKYLDCRPQDLPREVLTTNPRRLS--II 333
Query: 216 V----DDLAIFMRGKDMDHIEETLQNTIQ----------FKENTRYLGLNLDS------- 254
D LA + K ++ + L I+ +++ L + S
Sbjct: 334 AESIRDGLATWDNWKHVNC--DKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTIL 391
Query: 255 -SLTWKFHIEQTKSKSLKALNVMKILSNRNWGLRRETLRRLYYSFALPILDYGSILYSSA 313
SL W I+ + L L + ++ +Y + +
Sbjct: 392 LSLIWFDVIKSDVMVVVNKL-HKYSLVEKQPKESTISIPSIYLELKVKL----------- 439
Query: 314 SEPNLKKLNVVHHTGVRLISGAFRTSPIVSILAESGIPPLSNLSKREVVHHFLEFKEQHK 373
N L H R I + P + P L + HH L+ E +
Sbjct: 440 --ENEYAL---H----RSIVDHYNI-PKTFDSDDLIPPYLDQYFYSHIGHH-LKNIEHPE 488
Query: 374 LDTL---CFTD----GSKTTDHTGAAFI----IRDEICSMK-----LNPICSIFTAELIA 417
TL F D K H A+ I + + +K + + + A
Sbjct: 489 RMTLFRMVFLDFRFLEQKIR-HDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNA 547
Query: 418 IEKCLEKIKDVVTHDLVTQNFIICSDSKSSLQ-ALQN 453
I L KI++ +ICS L+ AL
Sbjct: 548 ILDFLPKIEEN----------LICSKYTDLLRIALMA 574
Score = 46.0 bits (108), Expect = 3e-05
Identities = 52/388 (13%), Positives = 107/388 (27%), Gaps = 117/388 (30%)
Query: 215 FVDDLAIFMRGKDMDHIEETLQNTIQFKENTRYLGL-NLDSSLTWKFHIEQTKSKSLKAL 273
FVD+ D +++ ++ + +E + + S F +K + +
Sbjct: 29 FVDNF-------DCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQK 81
Query: 274 NVMKILSNRNWGLRRETLRRLYYSFALPILDYGS---ILYSSASEPNLKKLNVV-HHTGV 329
V ++L N+ ++ ++ Y LY+ K NV +
Sbjct: 82 FVEEVL-RINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDN--QVFAKYNVSRLQPYL 138
Query: 330 RLISGAFRTSP---IV---------SILAESGIPPLSNLSKREVVHHF------LEFKEQ 371
+L P ++ + +A L +V L K
Sbjct: 139 KLRQALLELRPAKNVLIDGVLGSGKTWVA------LDVCLSYKVQCKMDFKIFWLNLKNC 192
Query: 372 HK-------LDTLCFT---DGSKTTDHTGA-----------------------AFIIRDE 398
+ L L + + + +DH+ ++
Sbjct: 193 NSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN 252
Query: 399 ICSMK----LNPICSI-----------FTAELIAIEKCLEKIKDVVTHDLVTQ---NFII 440
+ + K N C I F + L+ +T D V ++
Sbjct: 253 VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD 312
Query: 441 CSDSKSSLQALQNVYHVSPLVCDIISTIQDIRDLGTRVSFLWIPSHLGIRENDNVDHAAR 500
C + L +P II+ IRD W DN H
Sbjct: 313 CRPQDLPREVLT----TNPRRLSIIAES--IRDGLAT----W----------DNWKHVN- 351
Query: 501 HCNDVP-ITKVCI----SDDHKIQFKKI 523
C+ + I + + +++ F ++
Sbjct: 352 -CDKLTTIIESSLNVLEPAEYRKMFDRL 378
Score = 39.1 bits (90), Expect = 0.005
Identities = 69/566 (12%), Positives = 139/566 (24%), Gaps = 194/566 (34%)
Query: 84 DEIYNIKRQLPRPYIICSDMNAHNTIWGGSKIDSNGVQVEKFLLENDDVCLLNTNEATHF 143
D I K + + W + + V+KF+ E +L N
Sbjct: 52 DHIIMSKDAVSGTLRL---------FW--TLLSKQEEMVQKFVEE-----VLRIN----- 90
Query: 144 NSSNGTFSAIDLTLASRSITPDLKW----SVHDDLYLMLLVLTD-----IRQGSSLSGDL 194
+ + + + P + D LY V ++ L L
Sbjct: 91 ------YKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQAL 144
Query: 195 CNIATSDLPQYIPTVVSHGMF-----------VDDLAI------------FMRGKDMDHI 231
+ + V+ G+ + + +
Sbjct: 145 LEL------RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETV 198
Query: 232 EETLQNTI-QFKENTRYLGLNLDSSLTWKFHIEQTKSKSLKALNVMKILSNRNWGLRRET 290
E LQ + Q N D S K I +++ LRR
Sbjct: 199 LEMLQKLLYQIDPN---WTSRSDHSSNIKLRIHSIQAE-----------------LRR-L 237
Query: 291 LRRLYYSFALPILDYGSILYSSASEPNLKKLNVVHHTGVR---LISGAFRTSPIVSILAE 347
L+ Y L +L N++ + + L++ R + L+
Sbjct: 238 LKSKPYENCLLVLL------------NVQNAKAWNAFNLSCKILLTT--RFKQVTDFLSA 283
Query: 348 SGIPPLSNLSKREVVHHFLEFKEQHKLDTLCFTDGSKTTDHTGAAFIIRDEICSMKLNP- 406
+ + + HH + L + D + E+ NP
Sbjct: 284 A------TTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQD-------LPREVL--TTNPR 328
Query: 407 ICSIFTAELI-------------------AIEKCLEKI----------------KDV-VT 430
SI + IE L + +
Sbjct: 329 RLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIP 388
Query: 431 --------HDLVTQN--FIICSDSKSSL---QALQNVYHVSPLVCDIISTIQDIRDLGTR 477
D++ + ++ K SL Q ++ + + ++ +++ L
Sbjct: 389 TILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRS 448
Query: 478 V----SFL--WIPSHLGIRENDN--VDHAARHCNDVPITKVCISDDHKIQFKKIQLGEWS 529
+ + + L D H H K + F+ + L
Sbjct: 449 IVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHH------LKNIEHPERMTLFRMVFL---D 499
Query: 530 KSWSDNTTTGQKLKKIKPDTRKWKSS 555
+ + KI+ D+ W +S
Sbjct: 500 FRFLEQ--------KIRHDSTAWNAS 517
>1wdu_A TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA binding protein;
2.40A {Bombyx mori} SCOP: d.151.1.1
Length = 245
Score = 44.5 bits (104), Expect = 4e-05
Identities = 24/103 (23%), Positives = 41/103 (39%), Gaps = 5/103 (4%)
Query: 88 NIKRQLPRPYIICSDMNAHNTIWGGSKIDSNGVQVEKFLLENDDVCLLNTNEATH--FNS 145
++ P+ I D NA +T WG + D+ G Q+ L E L + T
Sbjct: 140 VERKMGPKRLIFGGDANAKSTWWGSKEDDARGDQLMGTLGELGLHILNEGDVPTFDTIRG 199
Query: 146 SNGTFSAIDLTLASRSITPDLK-WSVHDDLYLM--LLVLTDIR 185
S +D+T + + + W V +DL ++ +IR
Sbjct: 200 GKRYQSRVDVTFCTEDMLDLIDGWRVDEDLVSSDHNGMVFNIR 242
>2ei9_A Non-LTR retrotransposon R1BMKS ORF2 protein; four layered alpha
beta sandwich, gene regulation; 2.00A {Bombyx mori}
Length = 240
Score = 43.9 bits (102), Expect = 7e-05
Identities = 21/95 (22%), Positives = 42/95 (44%), Gaps = 11/95 (11%)
Query: 89 IKRQLPRPYIICSDMNAHNTIWG---------GSKIDSNGVQVEKFLLENDDVCLLNTNE 139
+ R +IC+D NAH+ +W G ++ ++E F+ V
Sbjct: 114 LDRLRGARVVICADTNAHSPLWHSLPRHYVGRGQEVADRRAKMEDFIGARRLVVHNADGH 173
Query: 140 ATHFNSSNGTFSAIDLTLASRSITPDLKWSVHDDL 174
F+++NG +D+TL++R + +W V ++
Sbjct: 174 LPTFSTANGESY-VDVTLSTRGVRVS-EWRVTNES 206
>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 = 31.6 bits (72), Expect = 0.27
Identities = 9/30 (30%), Positives = 13/30 (43%)
Query: 471 IRDLGTRVSFLWIPSHLGIRENDNVDHAAR 500
+ SF + +H G ND VD A+
Sbjct: 103 MNQYRGIYSFEKVKAHSGNEFNDYVDMKAK 132
>3iac_A Glucuronate isomerase; IDP02065, structural genom center for
structural genomics of infectious diseases, CSGI; 2.22A
{Salmonella typhimurium}
Length = 473
Score = 32.7 bits (74), Expect = 0.29
Identities = 10/34 (29%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 274 NVMKILSNRNWGLRRETLRRLYYSFA--LPILDY 305
N M ++ L+ + R LY+ +A +PI D+
Sbjct: 2 NAMATFMTEDFLLKNDIARTLYHKYAAPMPIYDF 35
>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 = 31.0 bits (71), Expect = 0.50
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 477 RVSFLWIPSHLGIRENDNVDHAAR 500
+V W+P+H GI N+ VD
Sbjct: 119 KVYLAWVPAHKGIGGNEQVDKLVS 142
>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 = 31.3 bits (71), Expect = 1.1
Identities = 25/87 (28%), Positives = 35/87 (40%), Gaps = 15/87 (17%)
Query: 413 AELIAIEKCLEKIKDVVTHDLVTQNFIICSDSKSSLQALQN--VYHVSPLVCDIISTIQD 470
EL AI L+ V I +DS+ +L +Q S LV II +
Sbjct: 479 TELQAIYLALQDSGLEVN---------IVTDSQYALGIIQAQPDKSESELVNQIIEQLIK 529
Query: 471 IRDLGTRVSFLWIPSHLGIRENDNVDH 497
+V W+P+H GI N+ VD
Sbjct: 530 ----KEKVYLAWVPAHKGIGGNEQVDK 552
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.1 bits (67), Expect = 1.3
Identities = 10/49 (20%), Positives = 23/49 (46%), Gaps = 7/49 (14%)
Query: 517 KIQFKKIQLGEWSKSWSDNTTTGQKLKKIKPDTRKWKSSMRWKRAEEIV 565
+ + KK L EW++ S+ +++K K + R + + +I+
Sbjct: 113 REKAKK-DLEEWNQRQSE------QVEKNKINNRIADKAFYQQPDADII 154
>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 = 1.4
Identities = 8/35 (22%), Positives = 14/35 (40%), Gaps = 10/35 (28%)
Query: 288 RETLRRLYYSFALPILDYGSILYSSASEPNLKKLN 322
++ L++L S L Y+ S P L +
Sbjct: 19 KQALKKLQASLKL---------YADDSAPAL-AIK 43
>1vyb_A ORF2 contains A reverse transcriptase domain; endonuclease, APE-1
type, retrotransposition, retrotransposon, transferase;
1.8A {Homo sapiens} SCOP: d.151.1.1 PDB: 2v0s_A 2v0r_A
Length = 238
Score = 29.5 bits (67), Expect = 2.3
Identities = 10/45 (22%), Positives = 21/45 (46%), Gaps = 3/45 (6%)
Query: 29 LTVCCLYI--SHDRKITKDEIYNIKRQLPRPYIICSDMN-AHNTI 70
LT+ +Y + + K + +++R L +I D N +T+
Sbjct: 109 LTILNIYAPNTGAPRFIKQVLSDLQRDLDSHTLIMGDFNTPLSTL 153
Score = 28.3 bits (64), Expect = 6.6
Identities = 6/22 (27%), Positives = 11/22 (50%), Gaps = 1/22 (4%)
Query: 89 IKRQLPRPYIICSDMN-AHNTI 109
++R L +I D N +T+
Sbjct: 132 LQRDLDSHTLIMGDFNTPLSTL 153
>1ovm_A Indole-3-pyruvate decarboxylase; thiamine diphosphate,
indole-3-acetic acid, TDP dependent enzyme, lyase; HET:
TPP; 2.65A {Enterobacter cloacae} SCOP: c.31.1.3
c.36.1.5 c.36.1.9
Length = 552
Score = 29.0 bits (66), Expect = 4.8
Identities = 14/57 (24%), Positives = 27/57 (47%), Gaps = 12/57 (21%)
Query: 321 LNVVHHTGVRLISGAFRTS-PIVSILAESGIPPLSNLSKREVVHHFL---EFKEQHK 373
L+ + G I+G++ P++ I G P + + E++HH L EF+ +
Sbjct: 80 LSAM--NG---IAGSYAEHVPVLHI---VGAPGTAAQQRGELLHHTLGDGEFRHFYH 128
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo
sapiens} PDB: 2qk9_A 2qkk_A*
Length = 154
Score = 27.9 bits (63), Expect = 5.0
Identities = 7/24 (29%), Positives = 12/24 (50%)
Query: 477 RVSFLWIPSHLGIRENDNVDHAAR 500
+ ++ +P H G N+ D AR
Sbjct: 123 DIQWMHVPGHSGFIGNEEADRLAR 146
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 0.135 0.407
Gapped
Lambda K H
0.267 0.0802 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,631,412
Number of extensions: 512299
Number of successful extensions: 1004
Number of sequences better than 10.0: 1
Number of HSP's gapped: 993
Number of HSP's successfully gapped: 39
Length of query: 570
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 471
Effective length of database: 3,937,614
Effective search space: 1854616194
Effective search space used: 1854616194
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: 60 (26.8 bits)