RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16181
(480 letters)
>3bdl_A Staphylococcal nuclease domain-containing protein 1; staphylococcal
nuclease OB fold, tudor domain, cytoplasm, HOST-virus
interaction, nucleus; HET: CIT; 1.90A {Homo sapiens}
Length = 570
Score = 118 bits (296), Expect = 1e-28
Identities = 84/371 (22%), Positives = 143/371 (38%), Gaps = 68/371 (18%)
Query: 13 GLVKFVNSGDSITLITDPKLRTEVTFLFTNVQAPKIARRPRADGPPSAQPE-DEPYAWEA 71
V V + D+I + + T ++++ P++ D +P D PY +EA
Sbjct: 27 AKVMQVLNADAIVVKLNSG--DYKTIHLSSIRPPRLEGENTQDKNKKLRPLYDIPYMFEA 84
Query: 72 REFLRKLIIGK--IVWYTAEKPEGNRYYGTLFYPNQDDDITKRSCGIRRKSRKAIATMAH 129
REFLRK +IGK V +P + +R+C IA
Sbjct: 85 REFLRKKLIGKKVNVTVDYIRPASPATETVPAFS-------ERTCATVTIGGINIAEAL- 136
Query: 130 CSIQTKVRKGKLSIFSCSAKSCIYFACMFLFLRTEFPPTDDDITKLLISEGWVSLRSKNP 189
V KG A + + DD RS +
Sbjct: 137 ------VSKG--------------LATVI-----RYRQDDDQ-------------RSSHY 158
Query: 190 D-LLDLENKAKEAGKGKYSTRDEPSAHVRSINWDPEPKQVLDKFGKR--IVKAVIDNINP 246
D LL E +A + GKG +S ++ P V I+ D + + F +R +AV++ +
Sbjct: 159 DELLAAEARAIKNGKGLHSKKEVPIHRVADISGDTQKAKQFLPFLQRAGRSEAVVEYVFS 218
Query: 247 GLTMRAFLLPDHYYVAFCLSGIKIVR----------ENEEYGREVRQYLEERILQRDVNV 296
G ++ +L + + F L+GI+ R E E + E + +E +LQR+V V
Sbjct: 219 GSRLKLYLPKETCLITFLLAGIECPRGARNLPGLVQEGEPFSEEATLFTKELVLQREVEV 278
Query: 297 IIESVQNEKNRIMNATLIHEGQKMNIGELLVREGFASCNTLLQGVYDEKKLREAEKLAQS 356
+ES+ N I + N+ LLV + + + K L AE+ A+
Sbjct: 279 EVESMDKAGNFIGWLHI----DGANLSVLLVEHALSKVHFTAERSSYYKSLLSAEEAAKQ 334
Query: 357 ERKRRWTNYTP 367
++++ W +Y
Sbjct: 335 KKEKVWAHYEE 345
Score = 91.5 bits (226), Expect = 7e-20
Identities = 42/133 (31%), Positives = 70/133 (52%), Gaps = 15/133 (11%)
Query: 354 AQSERKRRWTNYTPKKPPKERA--AVVLEIINGDGLVIKYVGDTKEEKVFLSSIKPPRPD 411
+ + P+ ++ A V++++N D +V+K + + + LSSI+PPR
Sbjct: 3 SSHHHHHHSSGLVPRGSHMDKQFVAKVMQVLNADAIVVK-LNSGDYKTIHLSSIRPPRL- 60
Query: 412 GAAAGGGGEGKAPVVRSKPLYDVPWLYEAREFLRTRLIGKKVMVSEDYAQDARD------ 465
G + + +PLYD+P+++EAREFLR +LIGKKV V+ DY + A
Sbjct: 61 -----EGENTQDKNKKLRPLYDIPYMFEAREFLRKKLIGKKVNVTVDYIRPASPATETVP 115
Query: 466 KFPEKKCVSVFVG 478
F E+ C +V +G
Sbjct: 116 AFSERTCATVTIG 128
Score = 74.5 bits (182), Expect = 2e-14
Identities = 42/216 (19%), Positives = 72/216 (33%), Gaps = 48/216 (22%)
Query: 274 NEEYGREVRQYLEERILQRDVNVIIESVQNEKNRIMN---------ATLIHEGQKMNIGE 324
+ Y E R++L ++++ + VNV ++ ++ AT+ G NI E
Sbjct: 77 DIPYMFEAREFLRKKLIGKKVNVTVDYIRPASPATETVPAFSERTCATVTIGGI--NIAE 134
Query: 325 LLVREGFASCNTLLQGVYDE----KKLREAEKLAQSERKRRWTNYTPKKPP--------- 371
LV +G A+ Q +L AE A K +
Sbjct: 135 ALVSKGLATVIRYRQDDDQRSSHYDELLAAEARAIKNGKGLHSKKEVPIHRVADISGDTQ 194
Query: 372 ------------KERAAVVLEIINGDGLVIKYVGDTKEEKVFLSSIKPPRPDGAAAGGGG 419
AVV + +G L + +T L+ I+ PR G
Sbjct: 195 KAKQFLPFLQRAGRSEAVVEYVFSGSRLKLYLPKETCLITFLLAGIECPRGARNLPGLVQ 254
Query: 420 EGKAPVVRSKPLYDVPWLYEAREFLRTRLIGKKVMV 455
EG+ P+ EA F + ++ ++V V
Sbjct: 255 EGE------------PFSEEATLFTKELVLQREVEV 278
Score = 74.1 bits (181), Expect = 3e-14
Identities = 51/375 (13%), Positives = 119/375 (31%), Gaps = 49/375 (13%)
Query: 12 KGLVKFVNSGDSITLITDPKLRTEVTFLFTNVQAPKIARRPRADGPPSAQPEDEPYAWEA 71
+ +V++V SG + + PK +TFL ++ P+ AR P E EP++ EA
Sbjct: 210 EAVVEYVFSGSRLK-LYLPKETCLITFLLAGIECPRGARNL-----PGLVQEGEPFSEEA 263
Query: 72 REFLRKLIIGKIVWYTAEK-PEGNRYYGTLFYPNQDDDITKRSCGIRRKSRKAIATMAHC 130
F ++L++ + V E + + G L + + + + A
Sbjct: 264 TLFTKELVLQREVEVEVESMDKAGNFIGWLHIDGANLSVLLVEHALSKVHFTA----ERS 319
Query: 131 SIQTKVRKGKLSIFSCSAKSCIYFACMFLFLRTEFPPTDDDITKLLISEGWVSLRSKNPD 190
S + + + K ++ + + +
Sbjct: 320 SYYKSLLSAEEAAKQKKEKVWAHYEEQPVEEVMPVLEEKERSASYKPVFVTEITDDLHFY 379
Query: 191 LLDLENKAKEAGKGKYSTRDEPSAHVRSINWDPEPKQ-VLDKFGKRI-VKAVIDNINPGL 248
+ D+E + + D S ++ P + + KF +A ++ +
Sbjct: 380 VQDVETGTQLEKLMENMRNDIASHPPVEGSYAPRRGEFCIAKFVDGEWYRARVEKVESPA 439
Query: 249 TMRAFL----------------LPDHYYVA--------FCLSGIKIVRENEEYGREVRQY 284
+ F L + + + I+ V ++++ +
Sbjct: 440 KIHVFYIDYGNREVLPSTRLGTLSPAFSTRVLPAQATEYAFAFIQ-VPQDDDARTDAVDS 498
Query: 285 LEERILQRDVNVIIESVQNEKNRIMNATLIHEGQKMNIGELLVREGFASCNTLLQGVYDE 344
+ I + +E + + TL K ++G LV+EG + +
Sbjct: 499 VVRDIQNTQCLLNVEHLSAGCPHV---TLQFADSKGDVGLGLVKEGLV--------MVEV 547
Query: 345 KKLREAEKLAQSERK 359
+K ++ +K+
Sbjct: 548 RKEKQFQKVITEYLN 562
>2wac_A CG7008-PA; unknown function, tudor, beta-barrel, nuclease domain,
tudor P100, SND1, methylated arginine, SDMA, splicing;
2.10A {Drosophila melanogaster}
Length = 218
Score = 51.2 bits (122), Expect = 2e-07
Identities = 23/112 (20%), Positives = 41/112 (36%), Gaps = 5/112 (4%)
Query: 253 FLLPDHYYVAFCLSGIKIVRENEEYGREVRQYLEERILQRDVNVIIESVQNEKNRIMNAT 312
F Y + L+ + + +NE E + E +L V + +E AT
Sbjct: 106 FSSEKPYATEYALALVALPTDNE-DKEEALRAFSEDVLNHKVQLNVELK--VTGSPNLAT 162
Query: 313 LIHEGQKMNIGELLVREGFASCNTLLQGVYDE--KKLREAEKLAQSERKRRW 362
L K++ G+ LV EG + E + + A++ A+ W
Sbjct: 163 LRDPTTKVDFGKQLVAEGLVLAEQRGERKLKELVDQYKAAQEAARVAHLAIW 214
Score = 27.7 bits (61), Expect = 8.2
Identities = 10/48 (20%), Positives = 15/48 (31%), Gaps = 8/48 (16%)
Query: 165 FPPTDDDITKLLISEGWVSLRSKNP--------DLLDLENKAKEAGKG 204
P T D K L++EG V + + A+ A
Sbjct: 165 DPTTKVDFGKQLVAEGLVLAEQRGERKLKELVDQYKAAQEAARVAHLA 212
>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 = 47.9 bits (113), Expect = 6e-06
Identities = 36/249 (14%), Positives = 72/249 (28%), Gaps = 82/249 (32%)
Query: 200 EAGKGKYSTRDEPSAHVRSINWDPEPKQVLDKFGKRIVKAVIDNI--NPGLTMRAFLLPD 257
E G+ +Y +D S + + + K V D + K ID+I + L
Sbjct: 10 ETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRL-- 67
Query: 258 HYYVAFCLSGIKIVRENEEYGREVRQYLEERILQRDVNVIIESVQNEKNRIMNATLIHEG 317
+ +E V++++EE +L+ + ++ ++ E
Sbjct: 68 ----------FWTLLSKQE--EMVQKFVEE-VLRINYKFLMSPIKTE------------- 101
Query: 318 QKMNIGELLVREGFASCNTLLQGVYDEKKLREAEKLAQSERKRRWTNYTPKKPPKERAAV 377
++ + L + + A+ R + K R A
Sbjct: 102 ---QRQPSMMTRMYIEQRDRLY--------NDNQVFAKYNVSR------LQPYLKLRQA- 143
Query: 378 VLEIINGDGLVIKYVGDTKEEKVFLSSIKPPRPDGAAAGGGGEGK----APVVRSKPL-- 431
+LE+ ++I G G GK V S +
Sbjct: 144 LLELRPAKNVLID-------------------------GVLGSGKTWVALDVCLSYKVQC 178
Query: 432 ---YDVPWL 437
+ + WL
Sbjct: 179 KMDFKIFWL 187
Score = 46.8 bits (110), Expect = 1e-05
Identities = 86/572 (15%), Positives = 163/572 (28%), Gaps = 185/572 (32%)
Query: 4 EKPPVIYRKGLVKFVNSGDSITLITDPKLRTEVTFLFTNVQ----APK------IARRPR 53
K + +K FV LR FL + ++ P I +R R
Sbjct: 73 SKQEEMVQK----FVEEV----------LRINYKFLMSPIKTEQRQPSMMTRMYIEQRDR 118
Query: 54 A--DGPPSAQ---PEDEPYAWEAREFLRKLIIGKIV-----------WYTAE-------- 89
D A+ +PY + R+ L +L K V W +
Sbjct: 119 LYNDNQVFAKYNVSRLQPY-LKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQ 177
Query: 90 -KPEGNRYYGTLFYPNQDDDITKRSCGIRRKSRKAIATMAHCSIQTKVR----KGKLSIF 144
K + ++ L N + + + + + + + S K+R + +L
Sbjct: 178 CKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL 237
Query: 145 SCSAKSCIYFACMFLFLRTEFPPTDD----------DIT-KLLISEGWVSLRSKNPDLLD 193
S Y C+ L L + +++ K+L++ ++ + D
Sbjct: 238 LKSKP---YENCL-LVL-------LNVQNAKAWNAFNLSCKILLT-------TRFKQVTD 279
Query: 194 LENKAKEAGKGKYSTRDEPSAHVRSINWDPEPKQVLDKF-GKRI--VKAVIDNINP-GLT 249
+ A T H E K +L K+ R + + NP L+
Sbjct: 280 FLSAAT--------TTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS 331
Query: 250 MRAFLLPDH-----YYVAFCLSGIKIVRE---NEEYGREVRQYLEE-RILQRDVNV---- 296
+ A + D + + + E N E R+ + + ++
Sbjct: 332 IIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTIL 391
Query: 297 --------IIESVQNEKNRIMNATLIHEGQKMNIGELLVREGFASCNTLLQGVYDEKKLR 348
I V N++ +L+ + K E + + +Y E K
Sbjct: 392 LSLIWFDVIKSDVMVVVNKLHKYSLVEKQPK----ESTIS---------IPSIYLELK-V 437
Query: 349 EAEKLAQSERK--------RRWTNYTPKKPPKERAAVVLEIINGDGLVIKYVG------D 394
+ E R + + + P D ++G +
Sbjct: 438 KLENEYALHRSIVDHYNIPKTFDSDDLIPPYL------------DQYFYSHIGHHLKNIE 485
Query: 395 TKEE-----KVFL------SSIKPPRPDGAAAGGGGEG----------KAPVVRSKPLYD 433
E VFL I R D A G K + + P Y+
Sbjct: 486 HPERMTLFRMVFLDFRFLEQKI---RHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYE 542
Query: 434 VPWLYEAREFLRTRLIGKKVMVSE--DYAQDA 463
+ +FL I + ++ S+ D + A
Sbjct: 543 R-LVNAILDFLPK--IEENLICSKYTDLLRIA 571
Score = 33.3 bits (75), Expect = 0.24
Identities = 36/264 (13%), Positives = 67/264 (25%), Gaps = 89/264 (33%)
Query: 62 PEDE--PYA-----W------EAREFLRKLIIGKIVWYTAEKPEGNRYYGTLFYPNQDDD 108
P P W + + KL +V E T+ P+ +
Sbjct: 382 PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLV-------EKQPKESTISIPSIYLE 434
Query: 109 ITKRSCGIRRKSRKAIATMAHCSIQTKVRKGKLSIFSCSAKSCIYFA------------C 156
+ + R + H +I L +
Sbjct: 435 LKVKLENEYALHRSIVD---HYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMT 491
Query: 157 MF--LFLRTEFPPTDDDITKLLISEG--WVSLRSKNPDLLDLENKAKEAGKGKYSTRDEP 212
+F +FL F + + + + W + S L L+ Y ++P
Sbjct: 492 LFRMVFLDFRF------LEQKIRHDSTAWNASGSILNTLQQLKF------YKPYICDNDP 539
Query: 213 SAHVRSINWDPEPKQVLDKFGKRIVKAVID---NINPGLTMRAFLLPDHYYVAFCLSGIK 269
R+V A++D I L + L I
Sbjct: 540 KYE-------------------RLVNAILDFLPKIEENLICSKYT---------DLLRIA 571
Query: 270 IVRENEEYGREVRQYLE-ERILQR 292
++ E+E + E + +QR
Sbjct: 572 LMAEDEAI------FEEAHKQVQR 589
>2hqx_A P100 CO-activator tudor domain; human P100 tudor domain,
proteolytic fragment, PSI, structural genomics; 1.42A
{Homo sapiens} SCOP: b.34.9.1 PDB: 2hqe_A 3omc_A*
3omg_A* 2o4x_A 2e6n_A 2o4x_B
Length = 246
Score = 45.8 bits (108), Expect = 1e-05
Identities = 16/107 (14%), Positives = 40/107 (37%), Gaps = 6/107 (5%)
Query: 258 HYYVAFCLSGIKIVRENEEYGREVRQYLEERILQRDVNVIIESVQNEKNRIMNATLIHEG 317
+ + I++ + +++ + + I + +E + + TL
Sbjct: 127 AQATEYAFAFIQVPQ-DDDARTDAVDSVVRDIQNTQCLLNVEHLSAGCPHV---TLQFAD 182
Query: 318 QKMNIGELLVREGFASCNTLLQGVYDE--KKLREAEKLAQSERKRRW 362
K ++G LV+EG + + + + A++ A+S R W
Sbjct: 183 SKGDVGLGLVKEGLVMVEVRKEKQFQKVITEYLNAQESAKSARLNLW 229
Score = 28.5 bits (63), Expect = 4.5
Identities = 7/88 (7%), Positives = 29/88 (32%), Gaps = 1/88 (1%)
Query: 376 AVVLEIINGDGLVIKYVGDTKEEKVFLSSIKPPRPDGAAAGGGGEGKAPVVRS-KPLYDV 434
A V ++ + + + Y+ E + + + P + + + D
Sbjct: 84 ARVEKVESPAKIHVFYIDYGNREVLPSTRLGTLSPAFSTRVLPAQATEYAFAFIQVPQDD 143
Query: 435 PWLYEAREFLRTRLIGKKVMVSEDYAQD 462
+A + + + + +++ ++
Sbjct: 144 DARTDAVDSVVRDIQNTQCLLNVEHLSA 171
Score = 27.7 bits (61), Expect = 7.7
Identities = 10/48 (20%), Positives = 18/48 (37%), Gaps = 8/48 (16%)
Query: 165 FPPTDDDITKLLISEGWVSLRSKNP--------DLLDLENKAKEAGKG 204
F + D+ L+ EG V + + + L+ + AK A
Sbjct: 180 FADSKGDVGLGLVKEGLVMVEVRKEKQFQKVITEYLNAQESAKSARLN 227
>4eqp_A Thermonuclease; staphylococcal nuclease, hyperstable, PDTP,
ionizable group, hydrolase; HET: THP; 1.35A
{Staphylococcus aureus} PDB: 3ero_A* 2rbm_A* 3d8g_A*
3bdc_A* 4f8m_A* 3lx0_A* 3nqt_A* 3nk9_A* 3pmf_A* 3sr1_A*
3t13_A* 3mxp_A* 3r3o_A* 4df7_A* 3np8_A* 3nxw_A* 3oso_A*
3mz5_A* 3mhb_A* 3dhq_A* ...
Length = 143
Score = 44.2 bits (105), Expect = 1e-05
Identities = 23/100 (23%), Positives = 43/100 (43%), Gaps = 7/100 (7%)
Query: 274 NEEYGREVRQYLEERILQRDVNVIIESVQNEK---NRIMNATLIHEGQKMNIGELLVREG 330
NE+YG E + ++ + + + R + A + +G+ + E LVR+G
Sbjct: 45 NEKYGPEASAFTKKMVENAKKDEVEFDKGQRTDKYGRGL-AYIYADGK--MVNEALVRQG 101
Query: 331 FASCNTLLQG-VYDEKKLREAEKLAQSERKRRWTNYTPKK 369
A + +G E+ LR+AE A+ E+ W+
Sbjct: 102 LAKVAYVYKGNNTHEQLLRKAEAQAKKEKLNIWSEDNADS 141
Score = 30.4 bits (69), Expect = 0.59
Identities = 18/102 (17%), Positives = 31/102 (30%), Gaps = 24/102 (23%)
Query: 366 TPKKPPKERAAVVLEIINGDGLVIKYVGDTKEEKVFLSSIKPPRPDGAAAGGGGEGKAPV 425
T K + A +++ I+GD + + Y G + L + P E
Sbjct: 2 TSTKKLHKEPATLIKAIDGDTVKLMYKG--QPMTFRLLLVDTP-----------EFNEK- 47
Query: 426 VRSKPLYDVPWLYEAREFLRTRLIGKKVMVSEDYAQDARDKF 467
+ EA F + + K E DK+
Sbjct: 48 ----------YGPEASAFTKKMVENAKKDEVEFDKGQRTDKY 79
Score = 30.4 bits (69), Expect = 0.65
Identities = 17/88 (19%), Positives = 29/88 (32%), Gaps = 19/88 (21%)
Query: 12 KGLVKFVNSGDSITLITDPKLRTEVTFLFTNVQAPKIARRPRADGPPSAQPEDEPYAWEA 71
+ GD++ L+ +TF V P+ +E Y EA
Sbjct: 11 PATLIKAIDGDTVKLMYK---GQPMTFRLLLVDTPEF---------------NEKYGPEA 52
Query: 72 REFLRKLII-GKIVWYTAEKPEGNRYYG 98
F +K++ K +K + YG
Sbjct: 53 SAFTKKMVENAKKDEVEFDKGQRTDKYG 80
>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 = 47.0 bits (111), Expect = 1e-05
Identities = 87/458 (18%), Positives = 143/458 (31%), Gaps = 154/458 (33%)
Query: 9 IYRKGLVKFVN---SGDSI-----TLITDPKLR-TEVTFLFTN-VQAPKIARRPRADGPP 58
+ L +F N G+ I L+ + + L N + A +A+RP
Sbjct: 83 VLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSN 142
Query: 59 SA------------------QPEDEPYAWEAREFLRKL------IIGKIVWYTAEK---- 90
SA Q + Y +E E LR L ++G ++ ++AE
Sbjct: 143 SALFRAVGEGNAQLVAIFGGQGNTDDY-FE--E-LRDLYQTYHVLVGDLIKFSAETLSEL 198
Query: 91 ----PEGNRYYGT-------LFYPNQ--DDDITKRSCGIRRKSRKAIA--TMAHCSIQTK 135
+ + + L P+ D D S I S I +AH + K
Sbjct: 199 IRTTLDAEKVFTQGLNILEWLENPSNTPDKDYL-LSIPI---SCPLIGVIQLAHYVVTAK 254
Query: 136 V---RKGKLSIFSCSAKSC---IYFACMFLFLRT--EFPPTDDDITKLLISEGWVSLRSK 187
+ G+L + A + A + F + +L ++ +R
Sbjct: 255 LLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLF---FIGVRCY 311
Query: 188 --------NPDLLDLENKAKEAGKGKYS--------TRDEPSAHVRSINWD-PEPKQV-- 228
P +L+ + E +G S T+++ +V N P KQV
Sbjct: 312 EAYPNTSLPPSILE---DSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEI 368
Query: 229 -L----DKF---G-----------KRIVKAVIDNIN----------PGLTMRAFL---LP 256
L G R KA ++ + R FL P
Sbjct: 369 SLVNGAKNLVVSGPPQSLYGLNLTLRKAKAP-SGLDQSRIPFSERKLKFSNR-FLPVASP 426
Query: 257 DH--YY---------------VAFCLSGIKI-VRENEEYGREVRQYLEERILQRDVNVII 298
H V+F I+I V + + G ++R L I +R V+ II
Sbjct: 427 FHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFD-GSDLRV-LSGSISERIVDCII 484
Query: 299 ES-VQNEKNRIMNATLIHE---GQKMNIGELLVR--EG 330
V+ E AT I + G +G L R +G
Sbjct: 485 RLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDG 522
Score = 45.8 bits (108), Expect = 3e-05
Identities = 53/345 (15%), Positives = 93/345 (26%), Gaps = 140/345 (40%)
Query: 1 MGSE---KPPV---IYRKGLVKFVNS-GDSITLI--TDPKLRTEVTFLFTNVQAPKIARR 51
MG + ++ + F ++ G SI I +P +T F + +I
Sbjct: 1631 MGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPV---NLTIHFGGEKGKRIREN 1687
Query: 52 PRA---DGPPSAQPEDEPYAWEAREFLRKLIIGKIVWYTAEKPEGNRYYGTLFYPNQDDD 108
A + + + E E E YT +G L
Sbjct: 1688 YSAMIFETIVDGKLKTEKIFKEINEHSTS--------YTFRSEKG-----LL-------S 1727
Query: 109 ITKR--------SCGIRR--KSRKAI---ATMA-HCSIQTKVRKGKLSIFSCSAKSCIYF 154
T+ KS+ I AT A H S+ G+ + + A
Sbjct: 1728 ATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGH-SL------GEYAALASLADV---- 1776
Query: 155 ACMFLFLRTEFPPTDDDITKLLISEGWVSLRSKNPDLLDLENKAKEAGKGKYSTRDEPSA 214
M + + + ++ V R + + E G+ Y
Sbjct: 1777 --MSI----------ESLVEV------VFYRGM---TMQVAVPRDELGRSNYG------- 1808
Query: 215 HVRSINWDPEPKQVLDKFGKRIVKAVID-------------NIN-PGLTMRAFLLPDHYY 260
+ +IN P +V F + ++ V++ N N Y
Sbjct: 1809 -MIAIN----PGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQ----------Y 1853
Query: 261 VAFCLSG-------------------IKIVRENEEYGRE-VRQYL 285
VA +G I I+ + E V +L
Sbjct: 1854 VA---AGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEVEGHL 1895
Score = 43.5 bits (102), Expect = 1e-04
Identities = 27/128 (21%), Positives = 43/128 (33%), Gaps = 31/128 (24%)
Query: 200 EAGKGK--YSTRDEPSAHVRSINWDPEPKQVLDKFGKRIVKAVIDNINPGLTMRAFLLPD 257
E G G Y T S + + W+ D +G I+ VI+N P
Sbjct: 1628 EQGMGMDLYKT----SKAAQDV-WNRADNHFKDTYGFSILDIVINN------------PV 1670
Query: 258 HYYVAFCLSGIKIVRENEEYGREVRQYLEERILQRDVNVIIESVQNEKNRIMNATLIHEG 317
+ + F K +REN Y + + + D + E + E N +
Sbjct: 1671 NLTIHFGGEKGKRIREN--YSAMIFETIV------DGKLKTEKIFKEINEHST-SYTFRS 1721
Query: 318 QKMNIGEL 325
+K G L
Sbjct: 1722 EK---GLL 1726
Score = 36.6 bits (84), Expect = 0.024
Identities = 49/289 (16%), Positives = 75/289 (25%), Gaps = 126/289 (43%)
Query: 69 WE-----AREFLRKL-IIGKIVWYTAEKPEGNRYYGTL-FYPNQDDDITKRSCG------ 115
WE R+ + L IG Y P+ +D + + G
Sbjct: 289 WESFFVSVRKAITVLFFIGV---------RCYEAYPNTSLPPSILEDSLENNEGVPSPML 339
Query: 116 -IRRKSRKAIATMAHCSIQTKVRK--------GKLSI--------FSCS--AKSCIYFAC 156
I +++ + Q V K ++ I S +S
Sbjct: 340 SISNLTQEQV--------QDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLN- 390
Query: 157 MFLFLRTEFPPTDDDITKLLISE-----GWVSLRSKNP---DLL---------DLENKAK 199
L LR P+ D +++ SE L +P LL DL
Sbjct: 391 --LTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKN-N 447
Query: 200 EAGKGK------YSTRD----------EPSAHVRSI-----NWD----PEPKQVLDKFGK 234
+ K Y T D V I W+ + +LD FG
Sbjct: 448 VSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILD-FG- 505
Query: 235 RIVKAVIDNINPGLTMRAFLLPDHYYVAFCLSGI-KIVRENEEYGREVR 282
PG SG+ + N++ G VR
Sbjct: 506 -----------PGGA----------------SGLGVLTHRNKD-GTGVR 526
>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 = 31.5 bits (70), Expect = 0.35
Identities = 7/21 (33%), Positives = 10/21 (47%), Gaps = 1/21 (4%)
Query: 396 KEE-KVFLSSIKPPRPDGAAA 415
K+ K +S+K D A A
Sbjct: 19 KQALKKLQASLKLYADDSAPA 39
Score = 28.0 bits (61), Expect = 4.2
Identities = 8/36 (22%), Positives = 13/36 (36%), Gaps = 15/36 (41%)
Query: 345 KKLREAEKLAQSERKRRWTNYTPKKPPKERAAVVLE 380
KKL+ + KL Y P A+ ++
Sbjct: 23 KKLQASLKL-----------YADDSAP----ALAIK 43
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.7 bits (66), Expect = 1.3
Identities = 10/93 (10%), Positives = 32/93 (34%), Gaps = 16/93 (17%)
Query: 265 LSGIKIVRENEEYGREVRQYLEERILQRDVNVIIESVQNEKNRIMNATLIHEGQKMNIGE 324
++ + + E R+ R+ +R+ + D +++M + +K +
Sbjct: 74 IAQADRLTQEPESIRKWREEQRKRLQELD----------AASKVMEQEWREKAKK----D 119
Query: 325 LLVREGFASCNTLLQGVYDEKKLREAEKLAQSE 357
L E + ++ ++ + Q +
Sbjct: 120 L--EEWNQRQSEQVEKNKINNRIADKAFYQQPD 150
>2v6z_M DNA polymerase epsilon subunit 2; DNA replication, DPOE2,
transferase, AAA protein family; HET: DNA; NMR {Homo
sapiens}
Length = 99
Score = 27.7 bits (61), Expect = 3.2
Identities = 13/44 (29%), Positives = 22/44 (50%)
Query: 262 AFCLSGIKIVRENEEYGREVRQYLEERILQRDVNVIIESVQNEK 305
AF L G+ + E +Y E Q + E L+ + II +V+ +
Sbjct: 37 AFKLRGLLLRGEAIKYLTEALQSISELELEDKLEKIINAVEKQP 80
>3bbo_E Ribosomal protein L2; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 269
Score = 28.6 bits (65), Expect = 4.2
Identities = 16/36 (44%), Positives = 19/36 (52%), Gaps = 3/36 (8%)
Query: 417 GGGEGKAPVVRSKPLYDVPWLYEAREFLRTRLIGKK 452
GGGEG+AP+ R P PW Y A R+R K
Sbjct: 229 GGGEGRAPIGRKSPT--TPWGYPALGR-RSRKRNKY 261
>2ycb_A Beta-CAsp RNAse, cleavage and polyadenylation specificity factor;
hydrolase, KH, metallo-beta-lactamase; 3.10A
{Methanothermobacter thermautotrophicusorganism_taxid}
Length = 636
Score = 28.0 bits (63), Expect = 7.2
Identities = 22/134 (16%), Positives = 44/134 (32%), Gaps = 28/134 (20%)
Query: 352 KLAQSERKRRWTNYTPK--KPPKERAAVVLEIINGDGLVIKYVGDTKEEKVFLSSIKPPR 409
+A+ RKR P++ + EI+ + + D +V + + KP
Sbjct: 52 DIAKDIRKRIIIRSDRSVLMDPEKAIRKIHEIVPEEAKITNISFDDVTCEVIIEARKP-- 109
Query: 410 PDGAAAGGGGEG---------------KAPVVRSKPLYDVPWLY-----EAREFLRT--R 447
G G G + P + S+ + + E ++ L+
Sbjct: 110 --GLVIGKYGSTSREIVKNTGWAPKILRTPPISSEIIERIRRTLRKNSKERKKILQQLGN 167
Query: 448 LIGKKVMVSEDYAQ 461
I +K D+A+
Sbjct: 168 RIHQKPKYDNDWAR 181
>3af5_A Putative uncharacterized protein PH1404; archaeal CPSF, beta-CAsp
family, KH domain, ribonuclease, ME beta-lactamase
superfamily, archaea; 2.60A {Pyrococcus horikoshii} PDB:
3af6_A*
Length = 651
Score = 28.1 bits (63), Expect = 7.5
Identities = 28/132 (21%), Positives = 51/132 (38%), Gaps = 28/132 (21%)
Query: 352 KLAQSERKRRWTNYTPK--KPPKERAAVVLEIINGDGLVIKYVGDTKEEKVFLSSIKPPR 409
LA+ +KR P+ PP+E ++ EI+ + + D +V + + KP
Sbjct: 61 DLAKVLKKRISVRPDPEVLLPPEEAEKLIFEIVPKEAEITNIAFDPSVGEVLIEAKKP-- 118
Query: 410 PDGAAAGGGGEG---------------KAPVVRSKPLYDVPWLY-----EAREFLRT--R 447
G G GE + P ++S+ +Y + + + R+FLR R
Sbjct: 119 --GLVIGKNGETLRLITQKVKWAPKVVRTPPLQSQTIYSIRQILQTESKDRRKFLRQVGR 176
Query: 448 LIGKKVMVSEDY 459
I +K +
Sbjct: 177 NIYRKPEYKSRW 188
>2xr1_A Cleavage and polyadenylation specificity factor 1 subunit;
hydrolase, metallo-beta-lactamase, beta-CAsp, RNA
processing; 2.59A {Methanosarcina mazei}
Length = 640
Score = 28.0 bits (63), Expect = 8.1
Identities = 23/106 (21%), Positives = 40/106 (37%), Gaps = 15/106 (14%)
Query: 352 KLAQSERKRRWTNYTPK--KPPKERAAVVLEIINGDGLVIKYVGDTKEEKVFLSSIKPPR 409
LA+ R R P+ P++ +++ E++ + ++ Y D +V + + KP
Sbjct: 56 NLAKELRTRIAMRPDPRVLATPEDSISIIEEVVPKESVISSYYFDPDSGEVIIEAEKP-- 113
Query: 410 PDGAAAGGGGE---------GKAPVVRSKPLYDVPWLYEAREFLRT 446
G G G G P V P + REF+R
Sbjct: 114 --GLVIGKHGATLREITKQIGWIPKVVRTPPIKSRTVKNIREFMRN 157
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
0.318 0.137 0.405
Gapped
Lambda K H
0.267 0.0720 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,576,473
Number of extensions: 472756
Number of successful extensions: 1148
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1131
Number of HSP's successfully gapped: 34
Length of query: 480
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 383
Effective length of database: 3,993,456
Effective search space: 1529493648
Effective search space used: 1529493648
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: 59 (26.5 bits)