RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1016
(718 letters)
>3fqd_A Protein DHP1, 5'-3' exoribonuclease 2; protein-protein complex,
exonuclease, hydrolase, mRNA proces nuclease, nucleus,
rRNA processing, transcription; 2.20A
{Schizosaccharomyces pombe}
Length = 899
Score = 372 bits (956), Expect = e-117
Identities = 204/373 (54%), Positives = 266/373 (71%), Gaps = 8/373 (2%)
Query: 1 MGVPAFFRWLSRKYPSVIVHCVEDKPQEV-NGQKIPFDSSKPNPNGMEFDNLYLDMNGII 59
MGVPA FR LSRK+ VI +E +++ +G +I D S PNPNG+E DNLYLDMNGI+
Sbjct: 4 MGVPALFRLLSRKFAKVITPVIEAPTEKLPDGTEIEPDLSLPNPNGVECDNLYLDMNGIV 63
Query: 60 HPCTHPEDKPAPKDEDEMMVAIFECIDRLFRIVRPRKLLYMAIDGVAPRAKMNQQRSRRF 119
HPC+HPED+PAP+ EDEMMVA+FE DR+ +VRPR+LL++AIDGVAPRAKMNQQRSRRF
Sbjct: 64 HPCSHPEDRPAPETEDEMMVAVFEYTDRILAMVRPRQLLFIAIDGVAPRAKMNQQRSRRF 123
Query: 120 RASKETAEKIAEVARIREKLLADGCILPPEKEKGSHFDSNCITPGTPFMARLSACLHYYI 179
R+S+E A K E+ E+ G + K +DSNCITPGTPFM L+ L YYI
Sbjct: 124 RSSREAALKEEELQAFIEEAKQQGIPIDENATKKKSWDSNCITPGTPFMDTLAKSLRYYI 183
Query: 180 HDRLNNDPGWKGIKVILSDANVPGEGEHKIMDYIRKQRAQPDHDPNTQHCLCGADADLIM 239
++LN+DP W+ ++ ILSDA+VPGEGEHKIM++IR QR +P++DPNT H + G DADLIM
Sbjct: 184 INKLNSDPCWRNVRFILSDASVPGEGEHKIMEFIRSQRVKPEYDPNTHHVVYGLDADLIM 243
Query: 240 LGLATHEPNFTIIREEFKPNQARPCDVCGQMGHEMKECVGLDAEPNPESVITFGSEVEFI 299
LGLATHEP+F ++RE+ Q G +E +G+ + + FI
Sbjct: 244 LGLATHEPHFRVLREDVFFQQ-------GSTKKTKEERLGIKRLDDVSETNKVPVKKPFI 296
Query: 300 FVRLSVLREYLEKELAMPNLPFPYSFERALDDWVFMCFFVGNDFLPHLPSLEIREGAVDR 359
++ +S+LREYLE EL +PNLPFP+ ERA+DDWVF FFVGNDFLPHLPSL+IR+GAV+R
Sbjct: 297 WLNVSILREYLEVELYVPNLPFPFDLERAIDDWVFFIFFVGNDFLPHLPSLDIRDGAVER 356
Query: 360 LVNLYKKTVYKTQ 372
L +++ ++
Sbjct: 357 LTEIWRASLPHMG 369
Score = 101 bits (252), Expect = 3e-22
Identities = 48/94 (51%), Positives = 63/94 (67%)
Query: 395 VDESSEEEESNDEVRLWEDGFKDRYYESKFDVPKDDIAFRLMVGHEYVLGLCWVLKYYYQ 454
+S+EE E+ D VRL+E G+++RYYE KF + D+ YV GLCWVL YYYQ
Sbjct: 574 APDSTEENENTDTVRLYEPGYRERYYEQKFHISPDEPEKIREAVKHYVHGLCWVLLYYYQ 633
Query: 455 GCRSWKWYFPFHYAPFASDFINIAEVDTNFETGT 488
GC SW WY+P+HYAPFA+DF ++A +D FE
Sbjct: 634 GCPSWTWYYPYHYAPFAADFKDLASIDVKFELNQ 667
Score = 74.8 bits (182), Expect = 6e-14
Identities = 35/56 (62%), Positives = 43/56 (76%)
Query: 661 FAPQDSPIIDFYPEDFKIDLNGKKFAWQGVALLPFVDEERLHKALAPYYEKLSVEE 716
++S IIDFYPE+F IDLNGKKF WQGVALLPF+DE RL A++ Y +L+ EE
Sbjct: 695 MTDENSEIIDFYPENFTIDLNGKKFEWQGVALLPFIDENRLLNAVSKIYPQLTEEE 750
Score = 56.3 bits (134), Expect = 3e-08
Identities = 29/131 (22%), Positives = 49/131 (37%), Gaps = 5/131 (3%)
Query: 524 NFETGTQPVNNRILKFYVSDNIHLLILLVLRSWLVSLHVFTITYMIVSTMTLAGKASKLF 583
E + D+ I V +L L I V +T +AS
Sbjct: 308 EVELYVPNLPFPFDLERAIDDWVFFIFFVGNDFLPHLPSLDIRDGAVERLTEIWRAS--- 364
Query: 584 SRMLTYPGFLTDSGDVKLERVQLIMQDLGMMEDEIFKKRQQTETMFKMRNKMKKRRERQM 643
+ G+LT G V L R ++I+ +G ED+IFK+ +Q E + +++RE
Sbjct: 365 --LPHMGGYLTLDGSVNLARAEVILSAVGNQEDDIFKRLKQQEDRRNENYRRRQQRESNQ 422
Query: 644 KMAAQSTKAPS 654
+ +
Sbjct: 423 ESESYVDNVVI 433
>2y35_A LD22664P; hydrolase-DNA complex, RNA degradation, exonuclease
5'-3', R interference; 3.20A {Drosophila melanogaster}
Length = 1140
Score = 347 bits (891), Expect = e-106
Identities = 186/563 (33%), Positives = 258/563 (45%), Gaps = 113/563 (20%)
Query: 1 MGVPAFFRWLSRKYPSVIVHCVEDKPQEVNGQKIPFDSSKPNPNGMEFDNLYLDMNGIIH 60
MGVP FFR++S +YP + E E FDNLYLDMNGI+H
Sbjct: 1 MGVPKFFRYISERYPCLSELAREHCIPE-------------------FDNLYLDMNGIVH 41
Query: 61 PCTHPEDK--PAPKDEDEMMVAIFECIDRLFRIVRPRKLLYMAIDGVAPRAKMNQQRSRR 118
C+HP+D +E+++ IF +D+LF +++P++L ++++DGVAPRAKMNQQRSRR
Sbjct: 42 NCSHPDDNNIHFHLEEEQIFQEIFNYVDKLFYLIKPQRLFFLSVDGVAPRAKMNQQRSRR 101
Query: 119 FRASKETAEKIAEVARIREKLLADGCILPPEKEKGSHFDSNCITPGTPFMARLSACLHYY 178
FR ++E ++ A+ A+ E + FDSNCITPGT FM RL L +
Sbjct: 102 FRTAREAEQQEAKAAQRGEL------------REHERFDSNCITPGTEFMVRLQEGLRAF 149
Query: 179 IHDRLNNDPGWKGIKVILSDANVPGEGEHKIMDYIRKQRAQPDHDPNTQHCLCGADADLI 238
+ +++ DP W+ VILS PGEGEHKIMDYIR + QPD+DPNT+HCL G DA LI
Sbjct: 150 LKTKISTDPLWQRCTVILSGQEAPGEGEHKIMDYIRYMKTQPDYDPNTRHCLYGLDAALI 209
Query: 239 MLGLATHEPNFTIIREEFKPNQARPCDVCGQMGHEMKECVGLDAEPNPESVITFGSEVEF 298
+LGL THE +F ++REE K + + F
Sbjct: 210 ILGLCTHELHFVVLREEVKFGRNVKRTSVEET--------------------------RF 243
Query: 299 IFVRLSVLREYLEKEL-AMPNLPFPYSFERALDDWVFMCFFVGNDFLPHLPSLEIREGAV 357
+ L +LREYLE E A+ + +DDWV M F VGNDF+PHLP L I A+
Sbjct: 244 FLLHLGLLREYLELEFDALRTDEHKLDIAQLIDDWVLMGFLVGNDFIPHLPCLHISSNAL 303
Query: 358 DRLVNLYKKTVYKTQ------------------EQLRQEENGGGGGRGVKRSFDDVDESS 399
L Y L + E + + +
Sbjct: 304 PLLYRTYIGIYPTLGGNINENGKLNLRRLQIFISALTEVELDHFKEHADDLKYMNNKSEA 363
Query: 400 EEEESNDEVRLW-----------------------EDGFKDRYYESKFDVPKDD------ 430
+ + + + ++ +F K +
Sbjct: 364 FDMDVGEITESQNLDSDLGALINKSMLLYDDDSEEDCSDENAVLLKEFQNYKRNFYRNKF 423
Query: 431 -----IAFRLMVGHEYVLGLCWVLKYYYQGCRSWKWYFPFHYAPFASDFINIAEVDTNFE 485
+ H YV L WVL YYY+G +SW WY+PFHY PF SD NI +V+ F
Sbjct: 424 KRDPNDELIEELCHHYVNALQWVLDYYYRGVQSWDWYYPFHYTPFISDLKNIEQVEIAFH 483
Query: 486 TGTQPVNNNRILKFILYHFDNKM 508
GT P + L +L K+
Sbjct: 484 MGT-PFLPFQQLLAVLPAASAKL 505
Score = 74.2 bits (181), Expect = 9e-14
Identities = 27/53 (50%), Positives = 37/53 (69%)
Query: 664 QDSPIIDFYPEDFKIDLNGKKFAWQGVALLPFVDEERLHKALAPYYEKLSVEE 716
SP+ +FYP +F+ DLNGKK W+ V L+PF+DE RL A+ P +LS+EE
Sbjct: 517 PTSPLAEFYPLEFESDLNGKKHDWEAVVLIPFIDEGRLLAAMLPCEAQLSLEE 569
>3pie_A 5'->3' exoribonuclease (XRN1); beta berrel, tudor domain, chromo
domain, mRNA turnover, RRN processing, RNA binding, DNA
binding; 2.90A {Kluyveromyces lactis} PDB: 3pif_A
Length = 1155
Score = 318 bits (814), Expect = 5e-95
Identities = 153/376 (40%), Positives = 213/376 (56%), Gaps = 59/376 (15%)
Query: 1 MGVPAFFRWLSRKYPSVIVHCVEDKPQEVNGQKIPFDSSKPNPNGMEFDNLYLDMNGIIH 60
MG+P FF ++S ++P + Q ++G +IP EFDNLYLDMN I+H
Sbjct: 1 MGIPKFFHFISERWPQIS--------QLIDGSQIP-----------EFDNLYLDMNSILH 41
Query: 61 PCTHPEDKPAPK--DEDEMMVAIFECIDRLFRIVRPRKLLYMAIDGVAPRAKMNQQRSRR 118
CTH + E+E+ IF ID LF ++P++ YMAIDGVAPRAKMNQQR+RR
Sbjct: 42 NCTHGDGSEVNSRLSEEEVYSKIFSYIDHLFHTIKPKQTFYMAIDGVAPRAKMNQQRARR 101
Query: 119 FRASKETAEKIAEVARIREKLLADGCILPPEKEKGSHFDSNCITPGTPFMARLSACLHYY 178
FR + + + + + + E KG FDSN ITPGT FMA+L+ L Y+
Sbjct: 102 FRTAMDAEKALQKAIENGD-----------ELPKGEPFDSNAITPGTEFMAKLTENLKYF 150
Query: 179 IHDRLNNDPGWKGIKVILSDANVPGEGEHKIMDYIRKQRAQPDHDPNTQHCLCGADADLI 238
IHD++ ND W+ +KVI S VPGEG+HKIMDYIR RAQ D++PNT+HC+ G DADLI
Sbjct: 151 IHDKITNDTRWQNVKVIFSGHEVPGEGQHKIMDYIRAIRAQEDYNPNTRHCIYGLDADLI 210
Query: 239 MLGLATHEPNFTIIREEFKPNQARPCDVCGQMGHEMKECVGLDAEPNPESVITFGSEVEF 298
+LGL+TH+ +F ++REE + + F
Sbjct: 211 ILGLSTHDHHFCLLREEVTFGKRSSS-------------------------VKTLETQNF 245
Query: 299 IFVRLSVLREYLEKELA--MPNLPFPYSFERALDDWVFMCFFVGNDFLPHLPSLEIREGA 356
+ LS+LREYL E ++ F Y FER LDD++F+ F +GNDFLP+LP L +++GA
Sbjct: 246 FLLHLSILREYLALEFEEITDSVQFEYDFERVLDDFIFVLFTIGNDFLPNLPDLHLKKGA 305
Query: 357 VDRLVNLYKKTVYKTQ 372
L+ +K+ +
Sbjct: 306 FPVLLQTFKEALQHMD 321
Score = 97.4 bits (241), Expect = 6e-21
Identities = 37/96 (38%), Positives = 51/96 (53%), Gaps = 4/96 (4%)
Query: 410 LWEDGF---KDRYYESKFDVPKDDIAFRLMVGHEYVLGLCWVLKYYYQGCRSWKWYFPFH 466
++ + F KD+YY+ K D +D + YV GL WVL YYY+GC SW WY+ +H
Sbjct: 483 IYSERFVEWKDQYYKDKLDFSINDTDSLKEMTENYVGGLQWVLYYYYRGCPSWSWYYRYH 542
Query: 467 YAPFASDFINIAEVDTNFETGTQPVNNNRILKFILY 502
YAP SD I + + F G QP + L +L
Sbjct: 543 YAPRISDVIKGIDQNIEFHKG-QPFKPFQQLMAVLP 577
Score = 77.3 bits (189), Expect = 1e-14
Identities = 27/53 (50%), Positives = 39/53 (73%)
Query: 664 QDSPIIDFYPEDFKIDLNGKKFAWQGVALLPFVDEERLHKALAPYYEKLSVEE 716
+ SPI+DFYP + ++DLNGK W+ V + FVD++RL +A+APY KLS +E
Sbjct: 595 EHSPILDFYPNEVELDLNGKTADWEAVVKISFVDQKRLVEAMAPYDAKLSPDE 647
Score = 58.1 bits (139), Expect = 9e-09
Identities = 21/141 (14%), Positives = 47/141 (33%), Gaps = 5/141 (3%)
Query: 504 FDNKMFFWNKSLINIAEVDTNFETGTQPVNNRILKFYVSDNIHLLILLVLRSWLVSLHVF 563
+ + FF I + FE T V V D+ ++ + +L +L
Sbjct: 240 LETQNFFLLHLSILREYLALEFEEITDSVQFEYDFERVLDDFIFVLFTIGNDFLPNLPDL 299
Query: 564 TITYMIVSTMTLAGKASKLFSRMLTYPGFLTDSGDVKLERVQLIMQDLGMMEDEIFKKRQ 623
+ + K + + G++ + G + L R + ++ L E F+K+
Sbjct: 300 HLKKGAFPVLLQTFKEA-----LQHMDGYINEQGKINLARFSIWLKYLSDFEYLNFEKKD 354
Query: 624 QTETMFKMRNKMKKRRERQMK 644
F + + + +
Sbjct: 355 IDVEWFNQQLENISLEGERKR 375
>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 = 51.6 bits (123), Expect = 8e-07
Identities = 83/537 (15%), Positives = 126/537 (23%), Gaps = 249/537 (46%)
Query: 47 EFDNLYLDMNGIIH--PCTHPEDKPAPKDEDEMMVAIFECIDRLFRIVRPRKLLYMAIDG 104
EF+N YL+ N I H ++ + + +++ Y+
Sbjct: 90 EFENCYLEGNDI-HALAAKLLQENDTT-------------LVKTKELIKN----YITARI 131
Query: 105 VAPRAKMNQQRSRRFRASKETAEKIA--------------E---------------VARI 135
+A R + S FRA E ++ E +
Sbjct: 132 MAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFS 191
Query: 136 REKLLADGCILPPEKEKGSHFDSNC----------ITPGTPFMAR---------LSACLH 176
E L ++ + F TP ++ + H
Sbjct: 192 AETLSE---LIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAH 248
Query: 177 YYIHDR-LNNDPG-----WKGI----KVILSDANVP---GEGEH---------KIMDYI- 213
Y + + L PG KG + +++ A E ++ +I
Sbjct: 249 YVVTAKLLGFTPGELRSYLKGATGHSQGLVT-AVAIAETDSWESFFVSVRKAITVLFFIG 307
Query: 214 -RKQRAQPDHDPNTQHCLCGADADLI---------ML---GLATHEPNFTIIREEFKPNQ 260
R A P+ D + ML L T E + + N
Sbjct: 308 VRCYEAYPNTSLPPS-----ILEDSLENNEGVPSPMLSISNL-TQEQVQDYVNKT---NS 358
Query: 261 ARPCD---------------VCGQMGHEMKECVGLDAEPNPESVITFGSEVEFIFVRLSV 305
P V G P+S L
Sbjct: 359 HLPAGKQVEISLVNGAKNLVVSG----------------PPQS--------------LYG 388
Query: 306 LREYLEKELAMPNLP---FPYSFERALDDWVFMCFFVGNDFLP-----HLPSLEIREGAV 357
L L K A L P+S ER L N FLP H L A
Sbjct: 389 LNLTLRKAKAPSGLDQSRIPFS-ERKLK--------FSNRFLPVASPFHSHLL---VPAS 436
Query: 358 DRLVN-LYKK-----------TVYKTQ--EQLRQEEN----------------------- 380
D + L K VY T LR
Sbjct: 437 DLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQF 496
Query: 381 --------GGGG-------------GRGVKRSFDDVDESSEEEESNDEVRLWEDGFK 416
G GG G GV+ + + + +D+ GFK
Sbjct: 497 KATHILDFGPGGASGLGVLTHRNKDGTGVRV----IVAGTLDINPDDDY-----GFK 544
Score = 49.3 bits (117), Expect = 5e-06
Identities = 45/284 (15%), Positives = 82/284 (28%), Gaps = 105/284 (36%)
Query: 1 MGV------PAFFR-W------LSRKYPSVIVHCVEDKPQEV-------NGQKIPFDSSK 40
MG+ A W Y I+ V + P + G++I +
Sbjct: 1631 MGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRI-----R 1685
Query: 41 PNPNGMEFDN----------LYLDMNGIIHPCT--HPEDK--------PAPKDEDEMM-- 78
N + M F+ ++ ++N T + PA +
Sbjct: 1686 ENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPA------LTLM 1739
Query: 79 -VAIFECIDRLFRIVRPRKLLYMAIDG---------VAPRAKMNQQRSRRFRASKETAEK 128
A FE + I A G + A + E
Sbjct: 1740 EKAAFEDLKSKGLIPADA---TFA--GHSLGEYAALASL-------------ADVMSIES 1781
Query: 129 IAEVARIREKLLADGCILPPEKEKG-SHFDSNCITPGTPFMARLSACLHYYIHDRLNNDP 187
+ EV R + P E G S++ I PG + L Y + +R+
Sbjct: 1782 LVEVVFYRGMTMQV---AVPRDELGRSNYGMIAINPGRVAASFSQEALQYVV-ERVGKRT 1837
Query: 188 GWKGIKVILSDAN--VPGE-----GEHK-------IMDYIRKQR 217
GW ++ N V + G+ + ++++I+ Q+
Sbjct: 1838 GW-----LVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQK 1876
Score = 44.3 bits (104), Expect = 2e-04
Identities = 77/535 (14%), Positives = 149/535 (27%), Gaps = 191/535 (35%)
Query: 247 PNFTIIREEFKPNQARPCDVCGQMGHEMKECVGLDAEPNPESVITFGSEVE----FI-FV 301
+ ++E+F P + D EP + E F+ +V
Sbjct: 28 FIASQLQEQFNKILPEPTEGFAA-----------DDEPT--------TPAELVGKFLGYV 68
Query: 302 -----------RLSVLREYLEKELAMPNLPFPYSFERALDDWVFMCFFVGND---FLPHL 347
VL L FE + GND L
Sbjct: 69 SSLVEPSKVGQFDQVLNLCLT------------EFENC--------YLEGNDIHALAAKL 108
Query: 348 P-SLEIREGAVDRLVNLYKKTVYKTQEQLRQEENGGGGGRGVKRSFDDVDESSEEEESN- 405
+ L+ Y + ++ + K+S + + E +
Sbjct: 109 LQENDTTLVKTKELIKNY----ITARIMAKRPFD--------KKSNSALFRAVGEGNAQL 156
Query: 406 --------------DEVR-LWEDGFKDRYYESKFDVPKDDIAFRLMVGHEYVLGLCWVLK 450
+E+R L++ Y A L E + K
Sbjct: 157 VAIFGGQGNTDDYFEELRDLYQT------YHVLVGDLIKFSAETL---SELIRTTLDAEK 207
Query: 451 YYYQGCRSWKW-----------YFPFHYAPFASDFINIAEVDTNFET-----GTQPVNNN 494
+ QG +W Y P + I + ++ ++ G P
Sbjct: 208 VFTQGLNILEWLENPSNTPDKDYLL--SIPISCPLIGVIQL-AHYVVTAKLLGFTPGELR 264
Query: 495 RILKFILYHFDNKMFFWNKSLIN---IAEVDTNFETGTQPVNNRILKFY--VSDNIHLLI 549
LK H ++ L+ IAE D+ +E+ F+ V I +L
Sbjct: 265 SYLKGATGH--------SQGLVTAVAIAETDS-WES-----------FFVSVRKAITVLF 304
Query: 550 LLVLRSWLV----SLHVFTI-----------TYMI-VSTMTLAGKASKLFSRMLTYPGFL 593
+ +R + SL + + M+ +S +T ++ + L
Sbjct: 305 FIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQE----QVQDYVNKTNSHL 360
Query: 594 TDSGDVKLERV----QLIM----QDLGMMEDEIFKKR-----QQTETMFKMRNKMKKRRE 640
V++ V L++ Q L + + K + Q+ F E
Sbjct: 361 PAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPF---------SE 411
Query: 641 RQMKMAAQSTKAPSFIPGGQFAPQDSPIIDFYPEDFKIDLNGKKFAWQGVAL-LP 694
R++K + + F+P +P S ++ + DL ++ + +P
Sbjct: 412 RKLKFSNR------FLP--VASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIP 458
Score = 38.5 bits (89), Expect = 0.009
Identities = 43/225 (19%), Positives = 68/225 (30%), Gaps = 78/225 (34%)
Query: 325 FERALDDWVFMCF-FVGNDFLPHLP-SLEIREGAVD--RLVNLYKKTVYKTQEQLRQEEN 380
+ RA D+ + F D + + P +L I G R+ Y ++ E
Sbjct: 1646 WNRA-DNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIF---------ET 1695
Query: 381 GGGGGRGVKRSFDDVDESS-------EEEESND-----------EVRLWEDGFKDRYYES 422
G ++ F +++E S E+ + E +ED +S
Sbjct: 1696 IVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFED------LKS 1749
Query: 423 KFDVPKDDIAFRLMVGH---EY--------VLGL---CWVLKY---YYQGCRSWKWYFPF 465
K +P D GH EY V+ + V+ Y Q
Sbjct: 1750 KGLIPADAT----FAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRS 1805
Query: 466 HYAPFASDFINIAEVDTNF--------------ETGT--QPVNNN 494
+Y A IN V +F TG + VN N
Sbjct: 1806 NYGMIA---INPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYN 1847
Score = 30.8 bits (69), Expect = 2.3
Identities = 40/206 (19%), Positives = 63/206 (30%), Gaps = 74/206 (35%)
Query: 26 PQEVNGQKIPFDSSKPNPNGMEFDNLYLDMNGIIHPCTHPEDKPAPKDEDEMMVAIFECI 85
P ++ +IPF K +F N +L P +P F
Sbjct: 399 PSGLDQSRIPFSERKL-----KFSNRFL-------PVA------SP----------FHS- 429
Query: 86 DRLFRIVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASK--------ETAEKIAEV-ARIR 136
LL A D + + + F A + + I
Sbjct: 430 ----------HLLVPASDLINKDL---VKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSIS 476
Query: 137 EKLLADGCILPPEKEKGSHFDSNCIT---PGTPFMARLSACLHYYIHDRLNNDPGWKGIK 193
E+++ LP + E + F + I PG + L H N G G++
Sbjct: 477 ERIVDCIIRLPVKWETTTQFKATHILDFGPGG--ASGLGVLTH-------RNKDG-TGVR 526
Query: 194 VILS---DANVPGEGEHKIMDYIRKQ 216
VI++ D N P + DY KQ
Sbjct: 527 VIVAGTLDIN-PDD------DYGFKQ 545
Score = 29.6 bits (66), Expect = 4.7
Identities = 19/116 (16%), Positives = 34/116 (29%), Gaps = 36/116 (31%)
Query: 609 QDLGM-ME--------DEIFKK--RQQTETM-FK----MRN------------KMKKRRE 640
Q+ GM M+ +++ + +T F + N K K+ RE
Sbjct: 1627 QEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRE 1686
Query: 641 RQMKMAAQSTKAPSFIPGGQFAPQDSPI--IDFY-PEDFKIDLNGKKFAWQGVALL 693
M ++ F + F + L+ +F Q AL
Sbjct: 1687 NYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGL---LSATQFT-Q-PALT 1737
>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 = 42.5 bits (99), Expect = 5e-04
Identities = 95/610 (15%), Positives = 162/610 (26%), Gaps = 192/610 (31%)
Query: 26 PQEVNGQKIPFDS--SKPNPNGMEFDNLYLDMN-GIIHPCTHPEDKPAPKDEDEMMVAIF 82
V+G F + SK +F L +N + E + P M +
Sbjct: 58 KDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQR-QPSMMTRMYI--- 113
Query: 83 ECIDRLFRIVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKETAEKIAEVARIREKLLAD 142
E DRL+ AK N R + ++R+ LL
Sbjct: 114 EQRDRLYN-------------DNQVFAKYNVSRLQ-------------PYLKLRQALLE- 146
Query: 143 GCILPPEKEKGSHFDSNCITPGTPFMARLSACLHYYIHDRLNNDPGWKGIKVILSDANVP 202
L P K G ++A L CL Y + +++ W +K S V
Sbjct: 147 ---LRPAKNVLIDGVLGS---GKTWVA-LDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL 199
Query: 203 GEGEHKIMDYIRKQRAQPDHDPNTQHCLCGADADLIMLGLATHEPN-FTIIREEFKPNQA 261
+ + ++ DH N + + A+L L + N ++
Sbjct: 200 EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAW 259
Query: 262 RPCDVCGQMGHEMKECVGL----DAEPNPESVITFGSEVEFIFVRLSVLREYLEKELAMP 317
++ C L V F S + L L +
Sbjct: 260 NAFNL---------SCKILLTTRFK-----QVTDFLSAATTTHISLDHHSMTLTPDEVK- 304
Query: 318 NLPFPYSFERALDDWVFMCFFVGNDFLPH-----LP---SL---EIREGA---------- 356
+L + LD LP P S+ IR+G
Sbjct: 305 SL-----LLKYLD--------CRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVN 351
Query: 357 VDRLVNLYKKTVYKTQEQLRQEENGGGGGRGVKRSF-------DDVD-----------ES 398
D+L + + ++ L E ++ F +
Sbjct: 352 CDKLTTIIESSL----NVLEPAE--------YRKMFDRLSVFPPSAHIPTILLSLIWFDV 399
Query: 399 SEEEESNDEVRL--------WEDGFK----DRYYESKFDVPKDDIAFRLMVGHEYVLGLC 446
+ + +L Y E K + + R +V H Y +
Sbjct: 400 IKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDH-YNIPKT 458
Query: 447 WVL---------KYYYQGCRSWKWYFPFHYAPFASDFINIAEVDTNFETGTQPVNNNRIL 497
+ +Y+Y + H I E T F
Sbjct: 459 FDSDDLIPPYLDQYFY-------SHIGHHLKN-----IEHPERMTLFRM----------- 495
Query: 498 KFILYHF-DNKM----FFWNK--SLIN-----------IAEVDTNFETGTQPVNNRILKF 539
F+ + F + K+ WN S++N I + D +E + VN IL F
Sbjct: 496 VFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYE---RLVNA-ILDF 551
Query: 540 YVSDNIHLLI 549
+L+
Sbjct: 552 LPKIEENLIC 561
Score = 42.1 bits (98), Expect = 6e-04
Identities = 57/475 (12%), Positives = 133/475 (28%), Gaps = 140/475 (29%)
Query: 341 NDFLPHL-----PSLEIREGAVDRLVNLYKKTVYKTQEQLRQEENG---------GGGGR 386
D L + + ++ D ++ K + +G
Sbjct: 19 KDILSVFEDAFVDNFDCKD-VQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEE 77
Query: 387 GVKRSFDDVDE-------SSEEEESND---EVRLWEDGFKDRYYE-----SKFDVPKDDI 431
V++ ++V S + E R++ + +DR Y +K++V +
Sbjct: 78 MVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIE-QRDRLYNDNQVFAKYNVSRLQP 136
Query: 432 AFRLMVG------HEYVL--GL--C--WVLKYYYQGCRSWKW--YFPF--HYAPFASDFI 475
+L + VL G+ + C S+K F + +
Sbjct: 137 YLKLRQALLELRPAKNVLIDGVLGSGKTWVAL--DVCLSYKVQCKMDFKIFW-------L 187
Query: 476 NIAEVDTNFETGTQPVNNNRILKFILYHFDNKMFFWNKSLINIAEVDTNFETGTQPVNNR 535
N+ ++ ET + + +LY D + + ++ +N + +
Sbjct: 188 NLKNCNSP-ETVLEMLQK------LLYQID-------PNWTSRSDHSSNIKLRIHSIQAE 233
Query: 536 ILKFYVSDNIHLLILLVLR----SWLVSLHVFTIT-YMIVSTM------TLAGKASKLFS 584
L+ + + LLVL + + F ++ ++++T L+ + S
Sbjct: 234 -LRRLLKSKPYENCLLVLLNVQNAKAWN--AFNLSCKILLTTRFKQVTDFLSAATTTHIS 290
Query: 585 RMLTYPGFLTDSGDVKLERVQLIMQDLGMMEDEI------------------FKKRQQTE 626
D E L+++ L ++ + T
Sbjct: 291 LDHHSMTLTPD------EVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATW 344
Query: 627 TMFKMRNKMKKRRERQMKMAAQSTKA--PSFIPGGQFA--PQDSPI------------ID 670
+K N K + + F + + P + I I
Sbjct: 345 DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFD---RLSVFPPSAHIPTILLSLIWFDVIK 401
Query: 671 FYPEDFK--------IDLNGKKFAWQ--GVAL---LPFVDEERLHKALAPYYEKL 712
++ K+ + L + +E LH+++ +Y
Sbjct: 402 SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIP 456
Score = 41.8 bits (97), Expect = 9e-04
Identities = 42/294 (14%), Positives = 81/294 (27%), Gaps = 85/294 (28%)
Query: 16 SVIVHCVEDKP------QEVNGQKIP--FDSS----KPNPNGMEFDNLYLDMNGIIHPCT 63
S+I + D + VN K+ +SS +P E+ ++ + +
Sbjct: 331 SIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPA----EYRKMFDRL-SVF---- 381
Query: 64 HPEDKPAP----------KDEDEMMVAIFECIDRLFRIVRPRKLLYMAIDGVAPRAKMNQ 113
P P + ++MV + + + + K ++I +
Sbjct: 382 -PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL-VEKQPKESTISIPSI-------- 431
Query: 114 QRSRRFRASKETA--EKIAEVARIREKLLADGCILPPEKE-----KGSHFDSNCITPGTP 166
+ + E A I + I + +D I P + G H
Sbjct: 432 YLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHH----------- 480
Query: 167 FMARLSACLHYYIHDRLNN---DPGWKGIKVILSDA--NVPGEGEHKIMD------YIRK 215
L H D + K+ N G + + YI
Sbjct: 481 ----LKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICD 536
Query: 216 QRAQPDHDPNT---------QHCLCGADADLIMLGLATHEPNFTIIREEFKPNQ 260
+ + N ++ +C DL+ + L + I E K Q
Sbjct: 537 NDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMA--EDEAIFEEAHKQVQ 588
Score = 41.4 bits (96), Expect = 0.001
Identities = 79/621 (12%), Positives = 163/621 (26%), Gaps = 189/621 (30%)
Query: 13 KYPSVIVHCVEDKPQEVNGQKIPFDSSKPNPNGMEFDNLYLDMNGIIHPCTHPEDKPAPK 72
+Y ++ + + + + D K + E D++ + K
Sbjct: 17 QYKDILSVFEDAFVDNFDCKDVQ-DMPKSILSKEEIDHIIMS-----------------K 58
Query: 73 DEDEMMVAIFECIDRLFRIVRPRKLLYMAIDGV--------------------APRAKMN 112
D + +F + + +++ ++ V
Sbjct: 59 DAVSGTLRLFWTLLS-----KQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYI 113
Query: 113 QQRSRRFRA----SKETAEKIAEVARIREKLLADGCILPPEKEKGSHFDSNCITPGTPFM 168
+QR R + +K ++ ++R+ LL L P K G ++
Sbjct: 114 EQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLE----LRPAKNVLIDGVLGS---GKTWV 166
Query: 169 ARLSACLHYYIHDRLNNDPGWKGIKVILSDANVPGEGEHKIMDYIRKQRAQPDHDPNTQH 228
A L CL Y + +++ W +K S V + + ++ DH N +
Sbjct: 167 A-LDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKL 225
Query: 229 CLCGADADLIMLGLATHEPN-FTIIREEFKPNQARPCDVCGQMGHEMKECVGL----DAE 283
+ A+L L + N ++ ++ C L
Sbjct: 226 RIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNL---------SCKILLTTRFK- 275
Query: 284 PNPESVITFGSEVEFIFVRLSVLREYLEKELAMPNLPFPYSFERALDDWVFMCFFVGNDF 343
V F S + L L + +L + LD
Sbjct: 276 ----QVTDFLSAATTTHISLDHHSMTLTPDEVK-SL-----LLKYLD--------CRPQD 317
Query: 344 LPH-----LP---SL---EIREGAVDRLVNLYKKTVYKTQEQLRQEENGGGGGRGVKRSF 392
LP P S+ IR+G + N +K + ++ S
Sbjct: 318 LPREVLTTNPRRLSIIAESIRDG-LATWDN-WKHVNCDKLTTI------------IESSL 363
Query: 393 DDVDESSEEEESNDEVRLWEDGFKDRYYESKFDVPKD-DIAFRLMVGHEYVLGLCWVLKY 451
+ ++ E R + ++ P I +L L W
Sbjct: 364 NVLEP--------AEYR--------KMFDRLSVFPPSAHIP-------TILLSLIWFDVI 400
Query: 452 YY------QGCRSW----KWYFPFHY----------APFASD------FINIAEVDTNFE 485
+ K ++ ++ + F+
Sbjct: 401 KSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFD 460
Query: 486 TG--TQPVNNNRILKFILYHFDN-------KMF--------FWNKSLINIAEVDTNFETG 528
+ P + I +H N +F F + + + D+
Sbjct: 461 SDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRH----DSTAWNA 516
Query: 529 TQPVNNRI--LKFY---VSDN 544
+ + N + LKFY + DN
Sbjct: 517 SGSILNTLQQLKFYKPYICDN 537
Score = 30.6 bits (68), Expect = 2.3
Identities = 58/467 (12%), Positives = 119/467 (25%), Gaps = 148/467 (31%)
Query: 8 RWLS--RKYPSVIVH--------------CVEDKPQEVNGQKIPF-----DSSKPNPNGM 46
+ L R +V++ C+ K Q KI F + + P
Sbjct: 142 QALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI-FWLNLKNCNSPETVLE 200
Query: 47 EFDNLYLDMNGIIHP-CTHPEDKPAPKDEDEMMVAIFECIDRLFRI-VRPRKLLYM---- 100
L ++ H + + + RL + LL +
Sbjct: 201 MLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ------AELRRLLKSKPYENCLLVLLNVQ 254
Query: 101 ---AIDGVAPRAKM-----NQQRSRRFRASKETAEKIAEVARIREK-----LLAD--GCI 145
A + K+ +Q + A+ T + + LL C
Sbjct: 255 NAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR 314
Query: 146 ---LPPEKEKGSHFDSNCITPGTPF-MARLSACLH----------YYIHDRLNN------ 185
LP E + P ++ ++ + + D+L
Sbjct: 315 PQDLPREVLTTN-----------PRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSL 363
Query: 186 ---DPG-----WKGIKVILSDANVP------------GEGEHKIMDYIRKQR-AQPDHDP 224
+P + + V A++P +++ + K +
Sbjct: 364 NVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE 423
Query: 225 NTQ--HCLCGADADLIMLGLATHEPNFT----IIREEFKPNQARPCDVCGQ--------- 269
+T + + L N I + + + D
Sbjct: 424 STISIP-------SIYLE-LKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYS 475
Query: 270 -MGHEMKECVGLDAEPNPESVITFGSEVEFIFVRLSVLREYLEKELAMPNLPFPYSFERA 328
+GH +K +PE + F +F+ L + + + N
Sbjct: 476 HIGHHLKNI------EHPERMTLF----RMVFLDFRFLEQKIRHDSTAWNASGS-----I 520
Query: 329 LDDWVFMCFFVGNDFLPHLPSLEIREGAVDRLVNLYKKTVYKTQEQL 375
L+ + P + + +RLVN + K +E L
Sbjct: 521 LNTL--------QQLKFYKPYICDNDPKYERLVNAILDFLPKIEENL 559
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA
complex; NMR {Rous sarcoma virus}
Length = 61
Score = 33.7 bits (77), Expect = 0.017
Identities = 8/21 (38%), Positives = 10/21 (47%)
Query: 257 KPNQARPCDVCGQMGHEMKEC 277
N C +C MGH K+C
Sbjct: 26 SGNSRERCQLCNGMGHNAKQC 46
>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 63
Score = 32.2 bits (73), Expect = 0.047
Identities = 6/21 (28%), Positives = 9/21 (42%)
Query: 257 KPNQARPCDVCGQMGHEMKEC 277
P Q + C C + H + C
Sbjct: 25 LPPQPKKCHFCQSISHMVASC 45
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA
complex; NMR {Homo sapiens}
Length = 74
Score = 30.7 bits (69), Expect = 0.24
Identities = 6/21 (28%), Positives = 9/21 (42%)
Query: 257 KPNQARPCDVCGQMGHEMKEC 277
P Q + C C + H + C
Sbjct: 42 LPPQPKKCHFCQSISHMVASC 62
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein,
retrovirus zinc finger-like domains; NMR {Equine
infectious anemia virus}
Length = 37
Score = 28.0 bits (62), Expect = 1.0
Identities = 7/18 (38%), Positives = 9/18 (50%)
Query: 260 QARPCDVCGQMGHEMKEC 277
+ C C Q GH K+C
Sbjct: 18 APKVCFKCKQPGHFSKQC 35
>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding
protein, retrovirus, viral protein; NMR {Mason-pfizer
monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A
Length = 60
Score = 28.4 bits (63), Expect = 1.2
Identities = 6/21 (28%), Positives = 8/21 (38%)
Query: 257 KPNQARPCDVCGQMGHEMKEC 277
+P C C + H EC
Sbjct: 26 EPKVPGLCPRCKRGKHWANEC 46
Score = 27.6 bits (61), Expect = 2.4
Identities = 7/17 (41%), Positives = 8/17 (47%)
Query: 261 ARPCDVCGQMGHEMKEC 277
C CG+ GH K C
Sbjct: 1 GGSCFKCGKKGHFAKNC 17
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding,
exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Length = 124
Score = 29.4 bits (65), Expect = 1.6
Identities = 8/18 (44%), Positives = 10/18 (55%)
Query: 260 QARPCDVCGQMGHEMKEC 277
A C+ C Q GH K+C
Sbjct: 3 AAPKCNNCSQRGHLKKDC 20
Score = 29.4 bits (65), Expect = 1.7
Identities = 4/25 (16%), Positives = 8/25 (32%)
Query: 253 REEFKPNQARPCDVCGQMGHEMKEC 277
+ + C +C H + C
Sbjct: 56 SQCPHKWKKVQCTLCKSKKHSKERC 80
Score = 29.0 bits (64), Expect = 2.7
Identities = 6/18 (33%), Positives = 10/18 (55%)
Query: 260 QARPCDVCGQMGHEMKEC 277
+A C C ++GH +C
Sbjct: 41 KAIQCSKCDEVGHYRSQC 58
Score = 27.8 bits (61), Expect = 6.8
Identities = 7/21 (33%), Positives = 8/21 (38%)
Query: 257 KPNQARPCDVCGQMGHEMKEC 277
P C CG GH +C
Sbjct: 101 LPFHTIYCYNCGGKGHFGDDC 121
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA
surveillance binds to TRF4P/AIR2P heterodimer; 2.70A
{Saccharomyces cerevisiae}
Length = 83
Score = 27.7 bits (61), Expect = 3.0
Identities = 4/14 (28%), Positives = 6/14 (42%)
Query: 264 CDVCGQMGHEMKEC 277
C +C H + C
Sbjct: 8 CTLCKSKKHSKERC 21
>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 = 29.1 bits (64), Expect = 3.0
Identities = 5/38 (13%), Positives = 13/38 (34%), Gaps = 16/38 (42%)
Query: 632 RNKMKKRRERQMKMAAQSTKAPSFIPGGQFAPQDSPII 669
+ +KK + +K+ +A +P +
Sbjct: 19 KQALKKL-QASLKL---------------YADDSAPAL 40
>1f4p_A Flavodoxin; electron transport, flavoprotein, FMN, 3D-STRCTURE,
anisotropic refinement, redox protein; HET: FMN; 1.30A
{Desulfovibrio vulgaris} SCOP: c.23.5.1 PDB: 1bu5_A*
1c7f_A* 1c7e_A* 1akr_A* 1fx1_A* 1akt_A* 1akq_A* 1aku_A*
1akv_A* 1azl_A* 1j8q_A* 2fx2_A* 3fx2_A* 4fx2_A* 5fx2_A*
1akw_A* 1i1o_A* 1wsw_A* 1wsb_A* 1xyv_A* ...
Length = 147
Score = 28.0 bits (63), Expect = 6.7
Identities = 6/28 (21%), Positives = 9/28 (32%), Gaps = 1/28 (3%)
Query: 659 GQFAPQDSPIIDFYPEDFKIDLNGKKFA 686
QD I + + G+K A
Sbjct: 62 DSIELQDD-FIPLFDSLEETGAQGRKVA 88
>1h7c_A Tubulin-specific chaperone A; protein folding, cofactor A; 1.8A
{Homo sapiens} SCOP: a.7.5.1
Length = 108
Score = 27.5 bits (61), Expect = 6.8
Identities = 14/57 (24%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 345 PHLPSLEIREGAVDRLV---NLYKKTVYKTQEQLRQEENGGGGGRGVKRSFDDVDES 398
P + ++I+ G V RLV +Y+K + +E++ + G +K+ + + ES
Sbjct: 4 PRVRQIKIKTGVVRRLVKERVMYEKEAKQQEEKIEKMRAEDGENYDIKKQAEILQES 60
>3f6r_A Flavodoxin; FMN binding, oxidized, electron transport,
flavoprotein, FMN, transport; HET: FMN; 2.00A
{Desulfovibrio desulfuricans} PDB: 3f6s_A* 3f90_A*
3kap_A* 3kaq_A*
Length = 148
Score = 27.6 bits (62), Expect = 7.9
Identities = 8/28 (28%), Positives = 12/28 (42%), Gaps = 1/28 (3%)
Query: 659 GQFAPQDSPIIDFYPEDFKIDLNGKKFA 686
QD + + E +I L G+K A
Sbjct: 63 EDLEMQDD-FLSLFEEFDRIGLAGRKVA 89
>3djm_A Uncharacterized protein DUF427; structural genomics, joint center
for structural genomics, J protein structure initiative,
PSI-2; 2.51A {Rhodobacter sphaeroides 2}
Length = 116
Score = 27.4 bits (61), Expect = 8.7
Identities = 7/35 (20%), Positives = 14/35 (40%), Gaps = 5/35 (14%)
Query: 403 ESNDEVRLWEDGFKDRYYESKFDVPKDDIAFRLMV 437
E+ + + L E Y P++D+A +
Sbjct: 28 ETLNAIELTEGSRDPVIY-----FPREDVAMVMFD 57
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 0.139 0.429
Gapped
Lambda K H
0.267 0.0436 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 11,622,677
Number of extensions: 737208
Number of successful extensions: 1594
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1574
Number of HSP's successfully gapped: 49
Length of query: 718
Length of database: 6,701,793
Length adjustment: 100
Effective length of query: 618
Effective length of database: 3,909,693
Effective search space: 2416190274
Effective search space used: 2416190274
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: 61 (28.0 bits)