RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5945
(568 letters)
>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 = 79.1 bits (194), Expect = 2e-15
Identities = 75/493 (15%), Positives = 140/493 (28%), Gaps = 144/493 (29%)
Query: 116 HKLTMNYKLSNFS---KDEIHHFLESYTKFLFVRHPFERLVSAFHNKLEQSYSSSKYFQS 172
H M+++ KD + F +++ + + S S +
Sbjct: 3 HHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSIL--------SKEEI--- 51
Query: 173 RFGKHIIKTIRTRPTNHSLNHGDDVTFNEFATFLTKNGRGEEMNEHWRPVHHLCQPCKIN 232
HII T F T L+K + + V + + N
Sbjct: 52 ---DHIIM----------SKDAVSGTLRLFWTLLSKQEEMVQ-----KFVEEVLRI---N 90
Query: 233 YDFIGKEI---PNYPRKHETLYEDANLLLREIGVPQKFNQNFSFKVKNTEVSFERIKEC- 288
Y F+ I P +Y + R Q F + V + + ++++
Sbjct: 91 YKFLMSPIKTEQRQPSMMTRMYIEQ--RDRLYNDNQVFAKYN---VSRLQ-PYLKLRQAL 144
Query: 289 ------------GPRG-G-----AEAQNRGDRQFNMEIRITNLPKDLPEF-LNESKSAVE 329
G G G + Q M+ +I F LN
Sbjct: 145 LELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI---------FWLNLKNCNSP 195
Query: 330 DAVLEALDNKYNKSDISSVFLSKDREAGAIAVTSEPFY---KDLLKLGEYDKNTLESGIK 386
+ VLE L + I + S+ + I + + LLK Y +N L
Sbjct: 196 ETVLEMLQKLLYQ--IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY-ENCL----- 247
Query: 387 ALIGASNVVEFSYVDGKDPIIVTKDF-YTAKKLILEIGEHMIAGQTPTLARVVEAEVSRN 445
L+ NV ++ F + K L+ T + V +S
Sbjct: 248 -LV-LLNV--------QNAKAW-NAFNLSCKILLT------------TRFKQVTDFLSAA 284
Query: 446 ATVEVSEVVEEVVFVEAEALEVEIAVEVEIAVEVL--EVAEG----VDVDGERLK----R 495
T +S + E + + ++ + L EV + + E ++
Sbjct: 285 TTTHISLDHHSMTLTPDEVKSL-LLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLAT 343
Query: 496 WQGLKYIPKCWA---VIQSFLCAL--------Y-----MPKCEDNVVSVPSQEVCKLLSG 539
W K++ C +I+S L L + P +P+ + +
Sbjct: 344 WDNWKHV-NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFP--PS--AHIPTILLSLIWFD 398
Query: 540 P----CRIVAQEL 548
+V +L
Sbjct: 399 VIKSDVMVVVNKL 411
Score = 60.6 bits (146), Expect = 9e-10
Identities = 96/617 (15%), Positives = 198/617 (32%), Gaps = 175/617 (28%)
Query: 1 MLIENQDSVTGTLGDIMKVN--------AKTYNIPSMNKNWSLTHFERLEYLTSQCLTYK 52
+L + ++ V + +++++N PSM + +RL Y +Q
Sbjct: 71 LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL-YNDNQVFA-- 127
Query: 53 EDLNKSSVLEDEQVL---EHILVDKKHK--LLY--------------CYVPKVACTNWKR 93
K +V + L + +L + K L+ C KV C +
Sbjct: 128 ----KYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFK 183
Query: 94 IFLILVGQINTTDPSSIP-ADVAHKLTMNYK-LSNFSKDEIH--HFLESYTKFLFVRHPF 149
IF + + N+ + + +++ N+ S+ S + H +++ + L P+
Sbjct: 184 IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY 243
Query: 150 ER--LVSAFHNKLEQSYSSS--KYF--QSRFGKHIIKTIR----------TRPTNHSLNH 193
E LV L ++ F + I+ T R T+ SL+H
Sbjct: 244 ENCLLV------LLNVQNAKAWNAFNLSCK----ILLTTRFKQVTDFLSAATTTHISLDH 293
Query: 194 GDDVTFNE------FATFLTKNGRGEEMNEHWRPVHHLCQPCKIN---YDFIGKEIPNYP 244
T +L + R +++ P + N I + I +
Sbjct: 294 HSM-TLTPDEVKSLLLKYL--DCRPQDL-----PR----EVLTTNPRRLSIIAESIRDGL 341
Query: 245 RKHETLYEDANLLLREIGVPQKFNQNFSFKVKNT-EVSFERIKECGPRGGAEAQNRGDRQ 303
+ K+ E S ++ AE + +
Sbjct: 342 AT-----------------WDNWKHVNCDKLTTIIESSLNVLEP------AEYR----KM 374
Query: 304 FNMEIRITNLPKD--LPEFL-----NESKSAVEDAVLEALDNKYNKSDISSVFLSKDREA 356
F + + P +P L + + V+ L + S + K +
Sbjct: 375 F-DRLSV--FPPSAHIPTILLSLIWFDVIKSDVMVVVNKL---HKYS-----LVEKQPKE 423
Query: 357 GAIAVTSEPFYKDLLKLGEYDKNTLESGIKALIGASNVVEFSYVDGKDPIIVTKDFYTAK 416
I++ S Y +L E ++ L ++++ N+ + D D I D Y
Sbjct: 424 STISIPS--IYLELKVKLE-NEYALH---RSIVDHYNIPK--TFDSDDLIPPYLDQYFYS 475
Query: 417 KLILEIGEHMIAGQTPTLARVVEAEVSRNATVEVSEVVEEV--VFVEAEALEVEIAVEVE 474
IG H+ +E E + VF++ LE +I
Sbjct: 476 ----HIGHHL-------------------KNIEHPERMTLFRMVFLDFRFLEQKI----- 507
Query: 475 IAVEVLEVAEGVDVDG-ERLKRWQGLKYIPKCWAVIQSFLCAL--YMPKCEDNVVSVPSQ 531
A G ++ ++LK ++ YI + + A+ ++PK E+N++
Sbjct: 508 RHDSTAWNASGSILNTLQQLKFYK--PYICDNDPKYERLVNAILDFLPKIEENLICSKYT 565
Query: 532 EVCKL-LSGPCRIVAQE 547
++ ++ L + +E
Sbjct: 566 DLLRIALMAEDEAIFEE 582
>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 = 62.4 bits (151), Expect = 3e-10
Identities = 63/416 (15%), Positives = 111/416 (26%), Gaps = 167/416 (40%)
Query: 136 LESYTKFLFVRHPFERLVSAFHNKLEQSYSSSKYFQSRFGKHIIKTIRTRPTNHSLNHGD 195
++ Y + + R A +F+ +G I+ + P N
Sbjct: 1633 MDLYKTSKAAQDVWNR---A-----------DNHFKDTYGFSILDIVINNPVNL------ 1672
Query: 196 DVTFNEFATFLTKNGRGEEMNEHWRPVHHLCQPCKINYD-FIGKEIPNYPRKHETLYEDA 254
T +G+ + E NY I + I + K E ++++
Sbjct: 1673 --------TIHFGGEKGKRIRE--------------NYSAMIFETIVDGKLKTEKIFKEI 1710
Query: 255 NLLLREIGVPQKFNQNFSFKVKNTEVSFERIKECGPRGGAEAQNRGDRQFNMEIRITNLP 314
N T +F +G + T
Sbjct: 1711 NEHS-------------------TSYTFR-----SEKG--------------LLSAT--- 1729
Query: 315 KDLPEF-----LNESKSAVEDAVLEALDNKYNKSDISSVFLSKDREAGAIAVTSEPFYKD 369
+F +E A E L +K + F AG
Sbjct: 1730 ----QFTQPALT-----LMEKAAFEDLKSKGLI-PADATF------AG------------ 1761
Query: 370 LLKLGEYDKNTLESGIKALIGASNVVEFSYVDGKDPI-IVTKDFYTAKKLILEIGEHMIA 428
LGEY + AL ++V+ + +V FY + + + +
Sbjct: 1762 -HSLGEY------A---ALASLADVMSIE-----SLVEVV---FYRGMTMQVAVPRDELG 1803
Query: 429 GQTPTLARVVEAEVSRNATVE-VSEVVEEVVFVEAEALEVEIA---VEVEIAVEVLEVA- 483
+ + V+ + + E + VVE V + VEI VE + V A
Sbjct: 1804 RSNYGMIAINPGRVAASFSQEALQYVVERV--GKRTGWLVEIVNYNVENQQYV----AAG 1857
Query: 484 --EGVDVDGERLKRWQGLKYIPKCWAVIQSFLCALYMPKCEDNVVSVPSQEVCKLL 537
+D L L+ I + L S+ +EV L
Sbjct: 1858 DLRALDTVTNVLNF-IKLQKID---------IIEL--------QKSLSLEEVEGHL 1895
Score = 58.1 bits (140), Expect = 6e-09
Identities = 85/566 (15%), Positives = 161/566 (28%), Gaps = 208/566 (36%)
Query: 93 RIFLILVGQINTTDPSSIPAD---VAHKLTMNYKLSNFSK------------DEIHHFLE 137
R + G + +P +A +L F+K DE E
Sbjct: 7 RPLTLSHGSLEHVLL--VPTASFFIASQLQ-----EQFNKILPEPTEGFAADDEPTTPAE 59
Query: 138 SYTKFL-FVRHP-------------------FER----------LVSAFHNKLEQSYSSS 167
KFL +V FE L + + + + +
Sbjct: 60 LVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKT 119
Query: 168 K-----YFQSRFGKHIIKTIRTRPTNHSL-NHGDDVTFNEFATFLTKNGRGEEMNEHWRP 221
K Y +R + K + +N +L + A F G+G + +
Sbjct: 120 KELIKNYITAR---IMAKRPFDKKSNSALFRAVGEGNAQLVAIF---GGQGN--TDDY-- 169
Query: 222 VHHLCQPCKINYDFIGKEIPNYPRKHETLYEDANLLLREIGVPQKFNQNFSFKVKNTEVS 281
F +E+ R LY+ ++L+ ++ + S
Sbjct: 170 -------------F--EEL----RD---LYQTYHVLVGDL----------------IKFS 191
Query: 282 FERIKECGPRGGAEAQNRGDRQFNMEIRITNLPKDLPEFLNESKSAVEDAVLEALDNKYN 341
E + E ++ F + ++ E+L + + L
Sbjct: 192 AETLSEL-----IRTTLDAEKVFTQGL-------NILEWLENPSNTPDKDYL-------- 231
Query: 342 KSDISSVFLSKDREAGAIAVTSEPFYKDLLKLGEYDKNTLESGIKALIG-ASNVVE---F 397
S+ +S I V Y KL + L S +K G + +V
Sbjct: 232 ----LSIPIS----CPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAI 283
Query: 398 SYVDGKDPIIVTKDFYTAKKLILE----IGEHMIAGQ--TPTLA---RVVEAEVSRNATV 448
+ D + F+ + + + IG + P + ++E + N V
Sbjct: 284 AETDSWE------SFFVSVRKAITVLFFIG---VRCYEAYPNTSLPPSILEDSLENNEGV 334
Query: 449 E-----VSEVVEEVVFVEAEALEVEIAVE--VEIAVE------VLEVA------EGVDVD 489
+S + +E V + VEI++ V V+ G+++
Sbjct: 335 PSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLV--VSGPPQSLYGLNLT 392
Query: 490 GERLKRWQGLK--YIP----KCWAVIQ-SFLCALYMPKCEDNVVSVP--SQEVCKLLSGP 540
+ K GL IP K FL P V+ P S LL
Sbjct: 393 LRKAKAPSGLDQSRIPFSERK--LKFSNRFL-----P------VASPFHS----HLLVPA 435
Query: 541 CRIVAQELSPEFNCQNGTKISSHSCK 566
++ ++L +N ++ +
Sbjct: 436 SDLINKDLV-----KNNVSFNAKDIQ 456
Score = 56.2 bits (135), Expect = 3e-08
Identities = 80/560 (14%), Positives = 151/560 (26%), Gaps = 225/560 (40%)
Query: 34 SLTHFERLEYLTSQCLTYKEDLNK--SSVLEDEQVLEHILVDKKHKLLYCYV-------- 83
LT FE YL D++ + +L++ + K +L+ Y+
Sbjct: 87 CLTEFEN-CYLEG------NDIHALAAKLLQEND----TTLVKTKELIKNYITARIMAKR 135
Query: 84 P----------KVACTNWKRIFLILVGQINTTDPSSIPADVAHKLTMNYKLSNFSKDEIH 133
P + ++ I GQ NT D Y F +E+
Sbjct: 136 PFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDD---------------Y----F--EELR 174
Query: 134 HFLESYTKFLFVRHPFERLVSAFHNKLEQSYSSSKYFQSRFGK--HIIKTIR---TRPTN 188
++Y + L+ L + ++ + F + +I++ + P
Sbjct: 175 DLYQTYHVLV------GDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDK 228
Query: 189 HSLNHGDDVTFNEFATFLTKNGRGEEMNEHWRPVHHLCQPCKINYDFIGKEI---PNYPR 245
L ++ P+ + Q +Y K + P R
Sbjct: 229 DYLLSI-PISC---------------------PLIGVIQLA--HYVVTAKLLGFTPGELR 264
Query: 246 KH-----------------------ETLYEDANLLLR---EIGVPQKFNQNFSFK----- 274
+ E+ + + IGV + + +
Sbjct: 265 SYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGV--RCYEAYPNTSLPPS 322
Query: 275 -----VKNTE--------VS-------FERIKECGPRGGAEAQ------NRGDRQFNMEI 308
++N E +S + + + A Q N G +
Sbjct: 323 ILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVN-GAKNLV--- 378
Query: 309 RITNLPKDLPEFLNES--KSAVEDAVLEALDN---KYN--KSDISSVFLSKDREAGAIAV 361
++ P+ L LN + K+ LD ++ K S+ FL
Sbjct: 379 -VSGPPQSL-YGLNLTLRKAKAPS----GLDQSRIPFSERKLKFSNRFL----------P 422
Query: 362 TSEPFYKDLLK------LGEYDKNTLESGIKALIGASNVVEFSYVDGKD----------- 404
+ PF+ LL + KN + K + V + DG D
Sbjct: 423 VASPFHSHLLVPASDLINKDLVKNNVSFNAKDI--QIPV--YDTFDGSDLRVLSGSISER 478
Query: 405 --PIIVTK--DFYTAKKL----ILEIGEHMIAGQTPTLARVVEAEVSRNAT---VEVSEV 453
I+ + T + IL+ G G L + RN V V
Sbjct: 479 IVDCIIRLPVKWETTTQFKATHILDFG----PGGASGLGVL----THRNKDGTGVRV--- 527
Query: 454 VEEVVFVEAEALEVEIAVEV 473
+ A L++ +
Sbjct: 528 ------IVAGTLDINPDDDY 541
Score = 44.7 bits (105), Expect = 1e-04
Identities = 73/440 (16%), Positives = 128/440 (29%), Gaps = 177/440 (40%)
Query: 22 KTYNIPSMNKNWSLTHFERLEYLTSQCLT----YKEDLNKSSVLEDEQVLEHILVDKKHK 77
+TY + + E L L L + + LN LE+
Sbjct: 178 QTY--HVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENP--------SNTPD 227
Query: 78 LLY-CYVPKVACTNWKRIFLILVGQINTTDPSSIPADVAHKLTMNY----KLSNFSKDEI 132
Y +P ++C LI V Q+ AH Y KL F+ E+
Sbjct: 228 KDYLLSIP-ISCP------LIGVIQL------------AH-----YVVTAKLLGFTPGEL 263
Query: 133 HHFLESYTKFLFVRHPFERLVSAFHNKLEQSYSSSKYFQSRFGKHIIKTIR--------- 183
+L+ T + LV+A + + + ++S F + K I
Sbjct: 264 RSYLKGATGHS------QGLVTAV------AIAETDSWES-FFVSVRKAITVLFFIGVRC 310
Query: 184 --TRPT--------NHSLNHGD----------DVTFNEFATFLTKNGRGEEMNEHWRPVH 223
P SL + + ++T + ++ + N H
Sbjct: 311 YEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYV------NKTNSHLPAGK 364
Query: 224 HLCQPCKINYDFIGKEIPNYPRKH------ETLYEDANLLLREIGVPQKFNQN---FSFK 274
+ I + N + ++LY NL LR+ P +Q+ FS
Sbjct: 365 QV---------EIS--LVNGAKNLVVSGPPQSLYG-LNLTLRKAKAPSGLDQSRIPFS-- 410
Query: 275 VKNTEVSFERIKECGPRGGAEAQNRGDRQFNMEIRITNLPKDLP---EFLNESKSAV-ED 330
ER K + +F LP P L + + +D
Sbjct: 411 --------ER-K---LKFSN--------RF--------LPVASPFHSHLLVPASDLINKD 442
Query: 331 AVLEALDNKYNKSDIS-SVFLSKDREAGAIAVTSEPFYKDLLKLGEYDKNTLESGIKALI 389
L + +N DI V+ + D G D L + E + +I
Sbjct: 443 --LVKNNVSFNAKDIQIPVYDTFD---G----------SD---LRVLSGSISERIVDCII 484
Query: 390 ------------GASNVVEF 397
A+++++F
Sbjct: 485 RLPVKWETTTQFKATHILDF 504
Score = 38.1 bits (88), Expect = 0.009
Identities = 49/326 (15%), Positives = 89/326 (27%), Gaps = 138/326 (42%)
Query: 293 GAEAQNRGDRQFNMEIRITNLPKDLPEFLNESKSAVEDAVLEALD----NKYNKSDISSV 348
G++ Q G M++ S V D + Y S I +
Sbjct: 1625 GSQEQGMG-----MDLY--------------KTSKAAQDVWNRADNHFKDTYGFS-ILDI 1664
Query: 349 FLSKDREAGAIAVTSEPFYKDLLKLGEYDKNTLESGIKALIGASNVVEFSYVDGKDPIIV 408
V + P + GE K E N + D +
Sbjct: 1665 ------------VINNPVNLTIHFGGEKGKRIRE----------NYSAMIFETIVDGKLK 1702
Query: 409 TKDFYTAKKLILEIGEH----MIAGQTPTLARVVEAEVSRNA-----TVEVS--EVVEE- 456
T+ K+ EI EH + L+ ++ +E + E ++
Sbjct: 1703 TE------KIFKEINEHSTSYTFRSEKGLLSA------TQFTQPALTLMEKAAFEDLKSK 1750
Query: 457 ------VVFV-----E-------AEALEVEIAVEV--------EIAVEVLEVAEG----V 486
F E A+ + +E VEV ++AV E+ +
Sbjct: 1751 GLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMI 1810
Query: 487 DVDGERLKRWQGLKYIPKCWAVIQSFLCALYMPKCEDNVVSVPSQEVCKLLS----GPCR 542
++ R V SF ++ + Q V + +
Sbjct: 1811 AINPGR---------------VAASF--------SQEAL-----QYVVERVGKRTGWLVE 1842
Query: 543 IVAQELSPEFNCQNGTKISSHSCKAL 568
IV +N +N +++ +AL
Sbjct: 1843 IVN------YNVENQQYVAAGDLRAL 1862
>1ijy_A Frizzled homolog 8; WNT receptor, frizzled protein structure,
cysteine-rich, signaling protein; 1.35A {Mus musculus}
SCOP: a.141.1.1
Length = 130
Score = 44.7 bits (105), Expect = 7e-06
Identities = 14/72 (19%), Positives = 29/72 (40%), Gaps = 7/72 (9%)
Query: 491 ERLKRWQGLKYIPKCWAVIQSFLCALYMPKCEDNVVSV--PSQEVCKLLSGPCRIVAQEL 548
+ ++ L I +C ++ FLC++Y P C ++ P + VC+ C + ++
Sbjct: 42 LEVHQFWPLVEI-QCSPDLKFFLCSMYTPICLEDYKKPLPPCRSVCERAKAGCAPLMRQY 100
Query: 549 S----PEFNCQN 556
C
Sbjct: 101 GFAWPDRMRCDR 112
>1ijx_A Secreted frizzled-related sequence protein 3; WNT receptor,
frizzled protein structure, cysteine-rich, SIG protein;
1.90A {Mus musculus} SCOP: a.141.1.1
Length = 127
Score = 44.0 bits (103), Expect = 1e-05
Identities = 15/59 (25%), Positives = 22/59 (37%), Gaps = 7/59 (11%)
Query: 505 CWAVIQSFLCALYMPKCEDNVVSV---PSQEVCKLLSGPCRIVAQELS---PEF-NCQN 556
C + FLCA+Y P C + P + VC+ C + + PE C
Sbjct: 50 CSPDLLFFLCAMYAPICTIDFQHEPIKPCKSVCERARQGCEPILIKYRHSWPESLACDE 108
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 34.7 bits (79), Expect = 0.094
Identities = 14/58 (24%), Positives = 25/58 (43%), Gaps = 5/58 (8%)
Query: 249 TLYEDANLLLREIGVPQKFNQNFSFKVKNTEVSFERIKECGPRG-----GAEAQNRGD 301
+ D NL L E+GVP+ + ++ T + +++E G GA+ R
Sbjct: 358 VITGDPNLSLDELGVPRSIAKTLTYPETVTPYNIYQLQELVRNGPDEHPGAKYIIRDT 415
>2xq0_A LTA-4 hydrolase, leukotriene A-4 hydrolase; HET: BES; 1.96A
{Saccharomyces cerevisiae} PDB: 2xpz_A* 2xpy_A*
Length = 632
Score = 31.3 bits (71), Expect = 1.0
Identities = 12/92 (13%), Positives = 31/92 (33%), Gaps = 10/92 (10%)
Query: 124 LSNFSKDEIHHFLESYTKFLFVRHPFERLVSAFHNKLEQSYSSSKYFQSRFGKHIIKT-- 181
+ +F+ +++ FLE+ T+ + A ++ +I+K+
Sbjct: 503 IKDFNSNQLVLFLETLTQNGHSNKKPKDFDWAKFPVASRALLDIYQD------NIVKSQN 556
Query: 182 --IRTRPTNHSLNHGDDVTFNEFATFLTKNGR 211
+ + + + A +L GR
Sbjct: 557 AEVVFKMFKFQIFAKLQEEYKHLADWLGTVGR 588
>4ayb_A DNA-directed RNA polymerase; transferase, multi-subunit,
transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_A
2y0s_A 2waq_A 4b1o_A 4b1p_W 2pmz_A 3hkz_A
Length = 880
Score = 31.4 bits (71), Expect = 1.1
Identities = 9/44 (20%), Positives = 22/44 (50%)
Query: 249 TLYEDANLLLREIGVPQKFNQNFSFKVKNTEVSFERIKECGPRG 292
+ D N+ + E+GVP+ + + + T + E++++ G
Sbjct: 325 VISPDPNISIDEVGVPEIIARTLTVPERITPWNIEKLRQFVING 368
>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 = 1.1
Identities = 10/35 (28%), Positives = 14/35 (40%), Gaps = 11/35 (31%)
Query: 416 KKLILEIGEHMIA-GQTPTLARVVEAEVSRNATVE 449
KKL + + A P LA + AT+E
Sbjct: 23 KKL--QASLKLYADDSAPALA------I--KATME 47
>2ob5_A AGR_C_3656P, hypothetical protein ATU2016; putavite sugar binding
protein, S genomics, PSI-2, protein structure
initiative; HET: MSE; 1.60A {Agrobacterium tumefaciens
str} SCOP: c.133.1.1
Length = 153
Score = 29.4 bits (65), Expect = 1.9
Identities = 15/116 (12%), Positives = 45/116 (38%), Gaps = 5/116 (4%)
Query: 404 DPIIVTKDFYTAKKLI-LEIGEHMIAGQTPTLARVVEAEVSRNATVEVSEVVEEVVFVEA 462
D ++++ + + + ++ + AR ++A +S + + ++ V
Sbjct: 28 DTLVISDTNFPSDSVARQTTVGKVLHIDNVSAARAMKAILSV---LPLDTPLQPSVGRME 84
Query: 463 EALEVEIAVEVEIAV-EVLEVAEGVDVDGERLKRWQGLKYIPKCWAVIQSFLCALY 517
+ V++ V + ++ AEG ++R+ + + + VI + Y
Sbjct: 85 VMGAPDQLEPVQVEVQQEIDAAEGKSAPMYGIERFAFYEKAKQAYCVITTGETRFY 140
>3dlo_A Universal stress protein; unknown function, structural genomics,
PSI-2, protein struct initiative, midwest center for
structural genomics; HET: MSE; 1.97A {Archaeoglobus
fulgidus} PDB: 3qtb_A*
Length = 155
Score = 29.2 bits (66), Expect = 2.3
Identities = 11/54 (20%), Positives = 20/54 (37%), Gaps = 4/54 (7%)
Query: 440 AEVSRNATVEVSEVVEEVV-FVEAEALEVEIAVEV---EIAVEVLEVAEGVDVD 489
+E E + V + E E E + V E ++++ A+ VD
Sbjct: 66 GRTKDEDIIEAKETLSWAVSIIRKEGAEGEEHLLVRGKEPPDDIVDFADEVDAI 119
>3mc2_A Inhibitor of carbonic anhydrase; MICA, transferrin superfamily,
lyase inhibitor; 2.40A {Mus musculus}
Length = 687
Score = 29.5 bits (65), Expect = 3.3
Identities = 9/41 (21%), Positives = 10/41 (24%), Gaps = 2/41 (4%)
Query: 525 VVSVPSQEVCKLLSGPCRIVAQELSPEFNCQNGTKISSHSC 565
VVS C + V P C S C
Sbjct: 16 VVSDHEATKCSSFRDNMKKVLPAGGPAVTCVRKM--SHPEC 54
>3bg3_A Pyruvate carboxylase, mitochondrial; TIM barrel, ATP-binding,
biotin, disease mutation, gluconeogenesis, ligase, lipid
synthesis, manganese; HET: KCX BTI; 2.80A {Homo sapiens}
PDB: 3bg9_A
Length = 718
Score = 29.2 bits (66), Expect = 5.0
Identities = 26/157 (16%), Positives = 56/157 (35%), Gaps = 21/157 (13%)
Query: 349 FLSKDREAGAIAVTSEPFYKDLLKLGEYDKNTLESGIKALIGASNVVE---------FSY 399
F G + + + K+ E + LE G I A V + F
Sbjct: 560 FKDFTATFGPLDSLNTRLFLQGPKIAEEFEVELERGKTLHIKALAVSDLNRAGQRQVFFE 619
Query: 400 VDGK------DPIIVTKDFYTAKKLILEIGEHMIAGQTPTLARVVEAEVSRNATVEVSEV 453
++G+ K+ + K + ++ + A P +V++ +V A V +
Sbjct: 620 LNGQLRSILVKDTQAMKEMHFHPKALKDVKGQIGA---PMPGKVIDIKVVAGAKVAKGQP 676
Query: 454 VEEVVFVEAEALEVEIAVEVEIAVEVLEVAEGVDVDG 490
+ + A +E + +E V + V + + ++G
Sbjct: 677 L---CVLSAMKMETVVTSPMEGTVRKVHVTKDMTLEG 710
>1twf_A B220, DNA-directed RNA polymerase II largest subunit;
transcription, mRNA, multiprotein complex; HET: UTP;
2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB:
1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A
1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A*
1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Length = 1733
Score = 28.9 bits (64), Expect = 6.7
Identities = 11/41 (26%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 253 DANLLLREIGVPQKFNQNFSFKVKNTEVSFERIKEC---GP 290
D NL L ++GVP+ + ++ T + +R+ + GP
Sbjct: 356 DPNLELDQVGVPKSIAKTLTYPEVVTPYNIDRLTQLVRNGP 396
>3hkl_A Muscle, skeletal receptor tyrosine protein kinase; MUSK, receptor
tyrosine kinase, frizzled CRD, ATP-binding, D bond,
glycoprotein; HET: NAG; 2.10A {Rattus norvegicus}
Length = 197
Score = 28.0 bits (61), Expect = 7.1
Identities = 12/47 (25%), Positives = 19/47 (40%), Gaps = 4/47 (8%)
Query: 496 WQGLKYI-PKCWAVIQSFLCALYMPKCEDNVVSVPS---QEVCKLLS 538
W LK + P C ++ LC +C V+ P +E C +
Sbjct: 59 WNELKAVSPLCRPAAEALLCNHLFQECSPGVLPTPMPICREYCLAVK 105
>2w56_A VC0508; unknown function; 1.90A {Vibrio cholerae} PDB: 2w56_B
Length = 147
Score = 27.4 bits (60), Expect = 9.0
Identities = 18/107 (16%), Positives = 40/107 (37%), Gaps = 19/107 (17%)
Query: 92 KRIFLILVGQINTTDPSSIPADVAHKLTMNYKLSNFSKD-------EI--------HHFL 136
K++ +L Q+ SS + L N++ ++S D E+ +
Sbjct: 15 KKLHKLLSKQLTAHLLSSEALTTSRYLVFNFRDKSYSADEGGFHPVEMAICQTSTGEWSI 74
Query: 137 ESYTKFLFVRHPFERLVSAFHNKLEQSYSSSKYFQSRFGKHIIKTIR 183
E T F ++ + + L L+ + ++F + G ++ R
Sbjct: 75 EYITDFAYMGNYYPELER----NLDFDFRVGQFFVAYRGWLPMQGSR 117
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 0.391
Gapped
Lambda K H
0.267 0.0623 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,717,810
Number of extensions: 543405
Number of successful extensions: 1298
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1278
Number of HSP's successfully gapped: 32
Length of query: 568
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 469
Effective length of database: 3,937,614
Effective search space: 1846740966
Effective search space used: 1846740966
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: 60 (27.1 bits)