RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3306
(535 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 = 51.4 bits (122), Expect = 6e-07
Identities = 92/635 (14%), Positives = 187/635 (29%), Gaps = 205/635 (32%)
Query: 5 HKWNLRGHLPNFLFKYMDERSFKIRLN--NSTLS-QDFSNVCGIPQGGVASSTLFAIAIN 61
H++ + L F ++D K + S LS ++ ++ + LF ++
Sbjct: 14 HQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLS 73
Query: 62 TITSYIHPSLSSSLFVDDFAIFTRDKNKDLLISTMQ-ESIDKLNHFSDQTGLYFSPQKTQ 120
FV++ N L+S ++ E S T +Y +
Sbjct: 74 ------KQEEMVQKFVEE----VLRINYKFLMSPIKTEQRQP----SMMTRMYIEQR--- 116
Query: 121 CVLFSRKYKQNNIAVNLTMYD-SRIEVVDQFRFLGLTFDKKMNWKIHLRNLKQSCVARSR 179
R Y N + Y+ SR++ + R L L+ +
Sbjct: 117 ----DRLYNDNQV---FAKYNVSRLQPYLKLR-------------QALLELRPA----KN 152
Query: 180 ILKIL-----SKKSW-ASDRKMLIRMYKSLIRSKLDYGCPAY--NSASANTL-QILNPVQ 230
+ ++ S K+W A D + YK ++ K+D+ + N + N+ +L +Q
Sbjct: 153 V--LIDGVLGSGKTWVALD---VCLSYK--VQCKMDFK--IFWLNLKNCNSPETVLEMLQ 203
Query: 231 NLCLRLA-TGAFRSSPVVSLEAETGEPNLDIRRKMLTCNYITKVLSIENHPNAMRILNPL 289
L ++ RS +++ ++RR +L + + N + +L +
Sbjct: 204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR----------LLKSKPYENCLLVLLNV 253
Query: 290 YKPK-----------------YENSNIKPTVGIQKKNLED-TIPFN-----SIMLKA--- 323
K + ++ +L+ ++ S++LK
Sbjct: 254 QNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC 313
Query: 324 ----LPKE-----PWLLK-----------SPKYDLSLSTYKKESMPAQFFQNEFKNKIEE 363
LP+E P L + ++ K ++ + +
Sbjct: 314 RPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRK 373
Query: 364 NFKDHVKIFTDGSKNDLGVGCALTIPERNIS-------------------KRFALNKNA- 403
F +F + IP +S K + K
Sbjct: 374 MFDRLS-VFPPSAH----------IPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPK 422
Query: 404 ----SIFHAELLALLQSLITIKELGVNKALIITDSLM--YPWKSSCQKSRLDEVCLMRMR 457
SI + L L L L +++++ ++ + LD
Sbjct: 423 ESTISI-PSIYLELKVKLENEYAL--HRSIVDHYNIPKTFDS-DDLIPPYLD-------- 470
Query: 458 LG--HSKITHSHLFRREDRPMCQQCQVPMTIEHILIACRNMRF--------RPPSFSSTS 507
+S I H HL + + + + + RF +S S
Sbjct: 471 -QYFYSHIGH-HLKN------IEHPERMTLFRMVFL---DFRFLEQKIRHDSTAWNASGS 519
Query: 508 ISD-----------ILKND---EGTLKEVLQFLKR 528
I + I ND E + +L FL +
Sbjct: 520 ILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPK 554
Score = 49.1 bits (116), Expect = 3e-06
Identities = 53/380 (13%), Positives = 117/380 (30%), Gaps = 94/380 (24%)
Query: 82 IFTRDKNKDLLISTMQESIDKLNHFSDQTGL-YFSPQKTQC-VLFSRKYKQNNIAVNLTM 139
+ ++ LL+ L + + F+ C +L + ++KQ ++
Sbjct: 238 LKSKPYENCLLV---------LLNVQNAKAWNAFNLS---CKILLTTRFKQVTDFLSAAT 285
Query: 140 YDSRIEVVDQFRFLGLTFDKKM----NW-KIHLRNL-KQSCVARSRILKILSKKSWASDR 193
+ I + + LT D+ + ++L ++ R L I+ S R
Sbjct: 286 T-THISLDH--HSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSII----AESIR 338
Query: 194 KMLIRM--YKSLIRSKLDYGCPAYNSASANTLQILNP--VQNLCLRLATGAFRSS---PV 246
L +K C + ++L +L P + + RL+ F S P
Sbjct: 339 DGLATWDNWK-------HVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV--FPPSAHIPT 389
Query: 247 VSL-----EAETGEP----NLDIRRKMLTCN-----------YITKVLSIENHPNAMRIL 286
+ L + + N + ++ Y+ + +EN R +
Sbjct: 390 ILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSI 449
Query: 287 NPLYKP--KYENSNIKPTVGIQKKNLEDTIPFNSI---MLKALPKEPWLLKSPKY-DLSL 340
Y +++ ++ P D ++ I + E L + D
Sbjct: 450 VDHYNIPKTFDSDDLIP-------PYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRF 502
Query: 341 STYK-KESMPAQFFQNEFKNKIE--ENFKDHVKIFTDGSKNDLGVGCALTIPERNIS--K 395
K + A N ++ + +K ++ ND ER ++
Sbjct: 503 LEQKIRHDSTAWNASGSILNTLQQLKFYKPYI------CDND-------PKYERLVNAIL 549
Query: 396 RFALNKNASIFHAELLALLQ 415
F ++ ++ LL+
Sbjct: 550 DFLPKIEENLICSKYTDLLR 569
Score = 38.3 bits (88), Expect = 0.006
Identities = 26/178 (14%), Positives = 62/178 (34%), Gaps = 40/178 (22%)
Query: 359 NKIEENFKDHVKIFTDGSKNDLGVGCALTIPERNISKR---FALNKNASIFHAELLALLQ 415
+ + +KD + +F D ++ +P+ +SK + ++ + L L
Sbjct: 12 GEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAV--SGTLRLFW 69
Query: 416 SLITIKELGVNKALIITDSLMYPWKSSCQKSRLDEVCLMRMRLGHSKITHSHLFRREDRP 475
+L++ +E V K + + Y + LM S I
Sbjct: 70 TLLSKQEEMVQKFVEEVLRINYKF-------------LM------SPIK----------- 99
Query: 476 MCQQCQVPMTIEHILIACRNMRFR-PPSFSSTSISDILKNDEGTLKEVLQFLKRNNFL 532
+ + P + + I R+ + F+ ++S + + L++ L L+ +
Sbjct: 100 --TEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLK--LRQALLELRPAKNV 153
>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 = 50.4 bits (120), Expect = 1e-06
Identities = 101/590 (17%), Positives = 173/590 (29%), Gaps = 201/590 (34%)
Query: 33 STLSQDFSNVCGIPQGGVA-----SST--LFAIAINTITSYIHPS--------LSSSL-- 75
S L + F+ + P G A ++ L + ++S + PS L+ L
Sbjct: 31 SQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTE 90
Query: 76 FVDDF----------AIFTRD------KNKDLL------ISTMQESIDKLNHFS------ 107
F + + A ++ K K+L+ + DK S
Sbjct: 91 FENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDK-KSNSALFRAV 149
Query: 108 --DQTGLY--FSPQKTQCVLFS--RK-YKQNNIAVNLTMYDSRIEVVDQFRFLGLTFDKK 160
L F Q F R Y+ Y + + + +
Sbjct: 150 GEGNAQLVAIFGGQGNTDDYFEELRDLYQ---------TYHVLVG-----DLIKFSAE-- 193
Query: 161 MNWKIHLRNLKQSCVARSRIL-KILSKKSWASDRKMLIRMYKSLIRSKLDY------GCP 213
L L ++ + ++ + L+ W + DY CP
Sbjct: 194 -----TLSELIRTTLDAEKVFTQGLNILEWLENPSN---------TPDKDYLLSIPISCP 239
Query: 214 -------AYNSASANTLQILNPVQNLCLRLATGAFRSSPVVS----LEAETGEPNLDIRR 262
A+ +A L P L L S +V+ E ++ E R
Sbjct: 240 LIGVIQLAHYVVTAKLLG-FTP-GELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVR 297
Query: 263 KMLTCNYITKVLSIENHPNAMRILNP-LYKPKYENSNIKPT-----VGIQKKNLEDTI-P 315
K +T + V E +PN L P + + EN+ P+ + ++ ++D +
Sbjct: 298 KAITVLFFIGVRCYEAYPNTS--LPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNK 355
Query: 316 FNSIMLKALPKEPW----LLKSPK-----------YDLSLSTYKKESMPAQFFQNEFKNK 360
N LP L+ K Y L+L+ +K P+ Q+ +
Sbjct: 356 TN----SHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLT-LRKAKAPSGLDQS----R 406
Query: 361 IEENFKDHVKIFTDGSKNDLGVGCALTIPER--NISKRFALNKNASIFHAELLALLQSLI 418
I F+ ER S RF L + FH+ LL LI
Sbjct: 407 IP---------FS----------------ERKLKFSNRF-LPVASP-FHSHLLVPASDLI 439
Query: 419 TIKELGVNKALIITDSLMYPWKSSCQKSRLDEVCLMRMRLGHSKITHSHLFRREDRPMCQ 478
K+L N + P + S D +R+ I+ +
Sbjct: 440 -NKDLVKNNVSFNAKDIQIPVYDTFDGS--D------LRVLSGSISER---------IVD 481
Query: 479 Q-CQVP--------MTIEHILIACRNMRFRPPSFSSTSISDIL-KNDEGT 518
++P HIL F P S + + +N +GT
Sbjct: 482 CIIRLPVKWETTTQFKATHILD------FGPGGAS--GLGVLTHRNKDGT 523
Score = 46.6 bits (110), Expect = 2e-05
Identities = 56/349 (16%), Positives = 104/349 (29%), Gaps = 125/349 (35%)
Query: 233 CLRLATGAFRS---------SPVVSLEAETGEPNLDIRRKMLTCNYITKVLSIENHPNAM 283
L L F + + L E + L ++++ ++++ P
Sbjct: 83 VLNLCLTEFENCYLEGNDIHALAAKLLQEN-DTTLVKTKELIKNYITARIMA--KRPFDK 139
Query: 284 RILNPLYKP-KYENSNIKPTVGIQKKNLEDTIPFNSIMLKALPKEPWLLKSPKYDLSLST 342
+ + L++ N+ + G Q N +D F L+ L Y T
Sbjct: 140 KSNSALFRAVGEGNAQLVAIFGGQG-NTDD--YFEE--LRDL-----------YQ----T 179
Query: 343 YKKESMPAQFFQNEFK--NKIEENFKDHVKIFTDGSKNDLGVGCALTIPERNISKRFALN 400
Y + + + +++ D K+FT G L + L P K + L+
Sbjct: 180 YH--VLVGDLIKFSAETLSELIRTTLDAEKVFTQG----LNILEWLENPSNTPDKDYLLS 233
Query: 401 KNAS---IFHAELLALLQSLITIKELGVNK-------------------ALII--TDSLM 436
S I ++ L ++T K LG A+ I TDS
Sbjct: 234 IPISCPLIG---VIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDS-- 288
Query: 437 YPWKSSCQKSRLDEVCLMRMRLGHSKITHSHLF----RREDRPMCQQCQVPMTIEHILIA 492
W+S + + LF R C +
Sbjct: 289 --WES------FFVSVRKAITV---------LFFIGVR------CYEA------------ 313
Query: 493 CRNMRFRPPSFSSTSISDILKNDEG-----------TLKEVLQFLKRNN 530
+ S + + D L+N+EG T ++V ++ + N
Sbjct: 314 -----YPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTN 357
Score = 45.0 bits (106), Expect = 6e-05
Identities = 75/427 (17%), Positives = 125/427 (29%), Gaps = 147/427 (34%)
Query: 9 LRGHLPNFLFKYMDERSFKIRLNN-----STLSQDFSNVCGIPQGGVASSTLFAIAINTI 63
L L F E + + N+ + L Q+ + T I
Sbjct: 84 LNLCLTEF------ENCY-LEGNDIHALAAKLLQE-------------NDTTLVKTKELI 123
Query: 64 TSY----------IHPSLSSSLF--VDD-----FAIF-----TRDKNKDL--LISTMQES 99
+Y +S+LF V + AIF T D ++L L T
Sbjct: 124 KNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVL 183
Query: 100 IDKLNHFSDQT--GLYFSPQKTQCVLFSRKYKQNNIAVNLTMYDSR-------------- 143
+ L FS +T L + + +F++ NI L +
Sbjct: 184 VGDLIKFSAETLSELIRTTLDAE-KVFTQGL---NILEWLENPSNTPDKDYLLSIPISCP 239
Query: 144 -IEVVDQF-------RFLGLTFDKKMNWKIHLRNLKQSCVARSR-ILK---ILSKKSWAS 191
I V+ Q + LG T + LR+ + S+ ++ I SW S
Sbjct: 240 LIGVI-QLAHYVVTAKLLGFTPGE-------LRSYLKGATGHSQGLVTAVAIAETDSWES 291
Query: 192 DRKMLIRMYKSL----IRSKLDYGCPAYNSASANTLQILNPVQNLCLRLATGAFRSSP-- 245
+ + L +R Y S + L+ L G SP
Sbjct: 292 FFVSVRKAITVLFFIGVRCYEAYPNT---SLPPSILED-------SLENNEGV--PSPML 339
Query: 246 -VVSLEAETGEPNLDIRRKMLTCNYITKVLSIE--N---------HPNAMRILNP-LYK- 291
+ +L E + ++ L K + I N P ++ LN L K
Sbjct: 340 SISNLTQEQVQDYVNKTNSHLPAG---KQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKA 396
Query: 292 ---PKYENSNI-----KPTVGIQKKNLEDTIPFNS-IMLKALPK---------EPWL--- 330
+ S I K + L PF+S +++ A +
Sbjct: 397 KAPSGLDQSRIPFSERKLKFSNR--FLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKD 454
Query: 331 LKSPKYD 337
++ P YD
Sbjct: 455 IQIPVYD 461
Score = 37.0 bits (85), Expect = 0.020
Identities = 50/297 (16%), Positives = 90/297 (30%), Gaps = 109/297 (36%)
Query: 300 KPTVGIQKKNLEDTIP------FNSIMLKA-----LPK---------EPWLLKSP----- 334
+P + +LE + F + L+ LP+ EP +P
Sbjct: 7 RPLT-LSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEP---TTPAELVG 62
Query: 335 KYDLS-LSTYKKESMPAQFFQ------NEFKNKIEENF---KD-HVKIFTDGSKNDLGVG 383
K+ L +S+ + S QF Q EF E + D H +ND +
Sbjct: 63 KF-LGYVSSLVEPSKVGQFDQVLNLCLTEF----ENCYLEGNDIHALAAKLLQENDTTLV 117
Query: 384 C----------ALTIPERNISKRF--ALNKNASIFHAELLALL--QSLIT--IKEL---- 423
A + +R K+ AL + +A+L+A+ Q +EL
Sbjct: 118 KTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLY 177
Query: 424 ----GVNKALIITDSLMYPWKSSCQKSRLDEVCLMRMRLGHSKITHSH-------LFRRE 472
+ LI + L E L+R L K+ + L
Sbjct: 178 QTYHVLVGDLIKFSA-----------ETLSE--LIRTTLDAEKV-FTQGLNILEWLENPS 223
Query: 473 DRP----MCQQCQV--PMTIE-----HILIACRNMRFRP----PSFSSTS--ISDIL 512
+ P + + P+ I H ++ + + F P + ++
Sbjct: 224 NTPDKDYLLS-IPISCPL-IGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLV 278
Score = 35.8 bits (82), Expect = 0.045
Identities = 41/262 (15%), Positives = 80/262 (30%), Gaps = 80/262 (30%)
Query: 56 FAIA-I---NTITSYIHPSLSSSLFV-DDFAIFTRDKNKD------LLISTMQESIDKLN 104
F+I I N + IH + ++++ + D + + E
Sbjct: 1659 FSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSY- 1717
Query: 105 HFSDQTGLYFSPQKTQCVLFSRKYKQNNIAVNLTMYD---SRIEVVDQFRF----LG--- 154
F + GL + Q TQ L + ++ S+ + F LG
Sbjct: 1718 TFRSEKGLLSATQFTQPALT---------LMEKAAFEDLKSKGLIPADATFAGHSLGEYA 1768
Query: 155 --------LTFDKKMNWKI-HLR-NLKQSCVARSRILKILSKKSWASDRKML----IRMY 200
++ + + ++ R Q V R + + S+ M+ R+
Sbjct: 1769 ALASLADVMSIESLV--EVVFYRGMTMQVAVPRDELGR--------SNYGMIAINPGRVA 1818
Query: 201 KSLIRSKLDYGCPAYNSASANTLQILN---PVQNLCLRLATGAFRSSPVVSLEAETGE-P 256
S + L Y + ++I+N Q V + G+
Sbjct: 1819 ASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQY-------------VAA-----GDLR 1860
Query: 257 NLDIRRKMLTCNYITKVLSIEN 278
LD +L N+I K+ I+
Sbjct: 1861 ALDTVTNVL--NFI-KLQKIDI 1879
>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 = 42.9 bits (101), Expect = 5e-05
Identities = 23/84 (27%), Positives = 35/84 (41%), Gaps = 7/84 (8%)
Query: 371 IFTDGS---KNDLGVGCALTIPERNISKRFALNKNASIFHAELLALLQSLITIKELGVNK 427
+TDGS + A E + AL S AEL+AL Q+L + +N
Sbjct: 26 WYTDGSSFLQEGQRRAGAAVTTETEVIWARALPAGTSAQRAELIALTQALKMAEGKKLN- 84
Query: 428 ALIITDSLMYPWKSSCQKSRLDEV 451
+ TDS Y + ++ S E+
Sbjct: 85 --VYTDS-RYAFATAHVHSEGREI 105
>3kyl_A Telomerase reverse transcriptase; reverse transcriptase; 2.70A
{Tribolium castaneum} PDB: 3du5_A 3du6_A
Length = 596
Score = 41.8 bits (97), Expect = 5e-04
Identities = 23/172 (13%), Positives = 51/172 (29%), Gaps = 33/172 (19%)
Query: 39 FSNVCGIPQGGVASSTLFAIAI----NTITSYIHPSLSSSLFVDDFAIFTRDKNKDLLIS 94
+ G+ QG S L + + S + VDD+ + +K
Sbjct: 300 YKWNHGLLQGDPLSGCLCELYMAFMDRLYFSNLDKDAFIHRTVDDYFFCSPHPHKVYDFE 359
Query: 95 TMQESIDKLNHFSDQTGLYFSPQKTQCVLFSRKYKQNNIAVNLTMYDSRIEVVDQFRFLG 154
+ + + ++N P KT+ L + ++ Q D+ + G
Sbjct: 360 LLIKGVYQVN-----------PTKTRTNLPTHRHPQ-----------------DEIPYCG 391
Query: 155 LTFDKKMNWKIHLRNLKQSCVARSRILKILSKKSWASDRKMLIRMYKSLIRS 206
F+ ++ K+ + + SD + K++
Sbjct: 392 KIFNLT-TRQVRTLYKLPPNYEIRHKFKLWNFNNQISDDNPARFLQKAMDFP 442
>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 = 36.9 bits (86), Expect = 0.005
Identities = 14/76 (18%), Positives = 25/76 (32%), Gaps = 8/76 (10%)
Query: 366 KDHVKIFTDGS--KNDLGVGCALTIPERNISKRFAL-----NKNASIFHAELLALLQSLI 418
+ ++TDGS A + + + E+ A L ++
Sbjct: 4 RTEYDVYTDGSYVNGQYAWAYAFVKDGKVHYEDADVGKNPAAATMRNVAGEIAAALYAVK 63
Query: 419 TIKELGVNKALIITDS 434
+LGV K I+ D
Sbjct: 64 KASQLGV-KIRILHDY 78
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded
RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus
tokodaii} PDB: 3aly_A
Length = 149
Score = 36.2 bits (84), Expect = 0.009
Identities = 15/78 (19%), Positives = 28/78 (35%), Gaps = 12/78 (15%)
Query: 369 VKIFTDGSKN------DLGVGCALTIPERNISKRFALNKNASIFH-----AELLALLQSL 417
+ + DG G + + R I + L + + AE L+ +
Sbjct: 2 IIGYFDGLCEPKNPGGIATFGFVIYLDNRKIE-GYGLAEKPFSINSTNNVAEYSGLICLM 60
Query: 418 ITIKELGVNKALIITDSL 435
T+ LG++ +I DS
Sbjct: 61 ETMLRLGISSPIIKGDSQ 78
>3hst_B Protein RV2228C/MT2287; ribonuclease H1, RV2228C N-terminal domain,
fusion protein, maltose binding protein, HYDR; HET: MLR
TAR; 2.25A {Mycobacterium tuberculosis}
Length = 141
Score = 35.3 bits (82), Expect = 0.012
Identities = 17/113 (15%), Positives = 34/113 (30%), Gaps = 14/113 (12%)
Query: 367 DHVKIFTDGS----KNDLGVGCALTIPERN--ISKRFALNKNASIFHAELLALLQSLITI 420
V I DG G G + + + +++ A+ AE L+ L
Sbjct: 2 VKVVIEADGGSRGNPGPAGYGAVVWTADHSTVLAESKQAIGRATNNVAEYRGLIAGLDDA 61
Query: 421 KELGVNKALIITDSLM--------YPWKSSCQKSRLDEVCLMRMRLGHSKITH 465
+LG +A ++ DS + + K + + +
Sbjct: 62 VKLGATEAAVLMDSKLVVEQMSGRWKVKHPDLLKLYVQAQALASQFRRINYEW 114
>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 = 32.6 bits (73), Expect = 0.15
Identities = 9/20 (45%), Positives = 10/20 (50%), Gaps = 2/20 (10%)
Query: 331 LKSPKYDLSLSTYKKESMPA 350
LK K SL Y +S PA
Sbjct: 22 LK--KLQASLKLYADDSAPA 39
>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 = 0.35
Identities = 15/74 (20%), Positives = 32/74 (43%), Gaps = 6/74 (8%)
Query: 367 DHVKIFTDGS-KNDLGVG--CALTI---PERNISKRFALNKNASIFHAELLALLQSLITI 420
D V ++TDG ++ + + P ++ L + AE+ A +++
Sbjct: 6 DFVVVYTDGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAIEQA 65
Query: 421 KELGVNKALIITDS 434
K +NK ++ T+S
Sbjct: 66 KTQNINKLVLYTNS 79
>3ox4_A Alcohol dehydrogenase 2; iron, NAD, oxidoreductase; HET: NAD; 2.00A
{Zymomonas mobilis} PDB: 3owo_A*
Length = 383
Score = 31.0 bits (71), Expect = 1.1
Identities = 7/26 (26%), Positives = 15/26 (57%)
Query: 412 ALLQSLITIKELGVNKALIITDSLMY 437
+L +++ + G ALI++D+ M
Sbjct: 18 SLEKAIKDLNGSGFKNALIVSDAFMN 43
>1rrm_A Lactaldehyde reductase; structural genomics, dehydrogenase, PSI,
protein structure initiative; HET: APR; 1.60A
{Escherichia coli} SCOP: e.22.1.2 PDB: 2bi4_A* 2bl4_A*
Length = 386
Score = 29.9 bits (68), Expect = 2.4
Identities = 9/26 (34%), Positives = 13/26 (50%)
Query: 412 ALLQSLITIKELGVNKALIITDSLMY 437
A+ +K G KALI+TD +
Sbjct: 18 AVGALTDEVKRRGYQKALIVTDKTLV 43
>3bfj_A 1,3-propanediol oxidoreductase; opportunistic pathogens, decamer,
structural genomics,struct proteomics in europe, spine;
2.70A {Klebsiella pneumoniae}
Length = 387
Score = 29.5 bits (67), Expect = 3.3
Identities = 9/30 (30%), Positives = 14/30 (46%)
Query: 412 ALLQSLITIKELGVNKALIITDSLMYPWKS 441
A+ + LG KAL++TD + K
Sbjct: 20 AISVVGERCQLLGGKKALLVTDKGLRAIKD 49
>3nr5_A MAF1, repressor of RNA polymerase III transcription MAF; RNA-POL
III transcriptional repressor, RNA-POL III; 1.55A {Homo
sapiens}
Length = 164
Score = 28.5 bits (63), Expect = 3.8
Identities = 12/55 (21%), Positives = 25/55 (45%)
Query: 248 SLEAETGEPNLDIRRKMLTCNYITKVLSIENHPNAMRILNPLYKPKYENSNIKPT 302
L ETG+ ++ R + +C ++ S + + LN ++P Y+ S +
Sbjct: 21 QLTVETGDAHIIGRIESYSCKPLSDKCSRKTLFYLIATLNESFRPDYDFSTARSH 75
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of
RNA/DNA hybrid; 1.40A {Uncultured organism}
Length = 140
Score = 27.9 bits (63), Expect = 4.3
Identities = 20/89 (22%), Positives = 34/89 (38%), Gaps = 18/89 (20%)
Query: 367 DHVKIFTDG--SKN--DLGVGCALTIPERNISKRFALNKNASIFH-----AELLALLQSL 417
+ + I+TDG N G+G +T + N + A I AE AL+++L
Sbjct: 2 NKIIIYTDGGARGNPGPAGIGVVITDEKGNTLHESS----AYIGETTNNVAEYEALIRAL 57
Query: 418 ITIKELGVNKAL----IITDS-LMYPWKS 441
++ G + DS L+
Sbjct: 58 EDLQMFGDKLVDMEVEVRMDSELIVRQMQ 86
>3nfg_B DNA-directed RNA polymerase I subunit RPA34; triple barrel,
transcription, dimerization; 2.51A {Candida glabrata}
PDB: 3nff_B
Length = 123
Score = 27.5 bits (60), Expect = 5.5
Identities = 24/111 (21%), Positives = 39/111 (35%), Gaps = 13/111 (11%)
Query: 308 KNLEDTIPFNSIMLKALPKEPWLLKSPK-------------YDLSLSTYKKESMPAQFFQ 354
K + F LK KE WL+K P D ++ST + S Q
Sbjct: 12 KQCKHLKSFPVSELKGDNKELWLMKVPANIDISQLKSLPLDTDATVSTVELGSKNFNVLQ 71
Query: 355 NEFKNKIEENFKDHVKIFTDGSKNDLGVGCALTIPERNISKRFALNKNASI 405
N + +N + I ++ K L V + + F +++ A I
Sbjct: 72 NTSTQEGSDNTNLSLLIPSEKKKETLKVATSKDNKSVYFDRVFTISETARI 122
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
0.321 0.135 0.395
Gapped
Lambda K H
0.267 0.0810 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,692,432
Number of extensions: 441896
Number of successful extensions: 994
Number of sequences better than 10.0: 1
Number of HSP's gapped: 980
Number of HSP's successfully gapped: 27
Length of query: 535
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 437
Effective length of database: 3,965,535
Effective search space: 1732938795
Effective search space used: 1732938795
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: 60 (26.7 bits)