RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2759
(229 letters)
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 173 bits (440), Expect = 5e-50
Identities = 83/218 (38%), Positives = 123/218 (56%), Gaps = 4/218 (1%)
Query: 12 FQK---QILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLD 68
F K ++LFATETFAMG+N+P RTV F S RK+DG+ R+L P E+ QMAGRAGRRGLD
Sbjct: 421 FSKGFIKVLFATETFAMGLNLPTRTVIFSSIRKHDGNGLRELTPGEFTQMAGRAGRRGLD 480
Query: 69 ESGTVIIMCKEELPGQEALKKMMLGKQTKLVSQFRLTYAMILNLMRVSMVNVEEMMSMSF 128
+GTVI+M K++ +G T+L SQFRLTY MILNL+R+ + VEEM+ SF
Sbjct: 481 STGTVIVMAYNSPLSIATFKEVTMGVPTRLQSQFRLTYNMILNLLRIEALRVEEMIKYSF 540
Query: 129 KEFGSRFRMQKNKEDLAQLEAKVRQGGEVRQAQDTDVLFENFFDQAKRFFEIRDSYMSLV 188
E ++++ + L+ +++ E + + D E F + + E + M +
Sbjct: 541 SENAKETLQPEHEKQIKVLQEELQT-IEYKSCEICDNDIEKFLELMLAYKEATVNLMQEM 599
Query: 189 EKTAEFKNAIVPGIVLHIWTLEHRDKLGLLLKVDHRRA 226
K+ + + G ++ KLG + KV + A
Sbjct: 600 VKSPSILHILKEGRLVAFRDPNDCLKLGFVFKVSLKDA 637
Score = 34.8 bits (79), Expect = 0.019
Identities = 22/66 (33%), Positives = 29/66 (43%), Gaps = 14/66 (21%)
Query: 1 MAHTWPFELDVFQKQILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEY-IQMA 59
A +WPFELD FQK+ ++ E V + A T A + AEY I MA
Sbjct: 32 PARSWPFELDTFQKEAVYHLEQGD-SVFVAAHTSAGKTV------------VAEYAIAMA 78
Query: 60 GRAGRR 65
R +
Sbjct: 79 HRNMTK 84
>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase,
tramp, exosome, DEAD, nucleotide-binding; HET: ADP;
2.90A {Saccharomyces cerevisiae}
Length = 1010
Score = 151 bits (382), Expect = 3e-42
Identities = 74/217 (34%), Positives = 119/217 (54%), Gaps = 10/217 (4%)
Query: 12 FQK---QILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLD 68
FQ+ ++LFATETF++G+NMPA+TV F S RK+DG + R ++ EYIQM+GRAGRRGLD
Sbjct: 428 FQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGLD 487
Query: 69 ESGTVIIMCKEELPGQEALKKMMLGKQTKLVSQFRLTYAMILNLMRVSMVNVEEMMSMSF 128
+ G VI+M E++ + K M+ G+ +L S F L Y MILNLMRV ++ E M+ SF
Sbjct: 488 DRGIVIMMIDEKME-PQVAKGMVKGQADRLDSAFHLGYNMILNLMRVEGISPEFMLEHSF 546
Query: 129 KEFGSRFRMQKNKEDLAQLEAKVRQGGEVRQAQDTDVLFENFFDQAKRFFEIRDSYMSLV 188
+F + + ++ LA+L+ + + + + + + R+ +V
Sbjct: 547 FQFQNVISVPVMEKKLAELKKDFDG-----IEVEDEENVKEYHEIEQAIKGYREDVRQVV 601
Query: 189 EKTAEFKNAIVPGIVLHIWTLEHRD-KLGLLLKVDHR 224
A + + PG ++ I + G ++ R
Sbjct: 602 THPANALSFLQPGRLVEISVNGKDNYGWGAVVDFAKR 638
Score = 33.6 bits (76), Expect = 0.054
Identities = 8/15 (53%), Positives = 9/15 (60%)
Query: 1 MAHTWPFELDVFQKQ 15
A T+PF LD FQ
Sbjct: 79 EARTYPFTLDPFQDT 93
>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold,
winged-helix-turn-helix, antiparallel-coiled-COI domain,
ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces
cerevisiae}
Length = 1108
Score = 151 bits (381), Expect = 4e-42
Identities = 70/199 (35%), Positives = 112/199 (56%), Gaps = 6/199 (3%)
Query: 15 QILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLDESGTVI 74
++LFATETF++G+NMPA+TV F S RK+DG + R ++ EYIQM+GRAGRRGLD+ G VI
Sbjct: 532 KVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGLDDRGIVI 591
Query: 75 IMCKEELPGQEALKKMMLGKQTKLVSQFRLTYAMILNLMRVSMVNVEEMMSMSFKEFGSR 134
+M E++ + K M+ G+ +L S F L Y MILNLMRV ++ E M+ SF +F +
Sbjct: 592 MMIDEKME-PQVAKGMVKGQADRLDSAFHLGYNMILNLMRVEGISPEFMLEHSFFQFQNV 650
Query: 135 FRMQKNKEDLAQLEAKVRQGGEVRQAQDTDVLFENFFDQAKRFFEIRDSYMSLVEKTAEF 194
+ ++ LA+L+ + + + + + + R+ +V A
Sbjct: 651 ISVPVMEKKLAELKKDFDG-----IEVEDEENVKEYHEIEQAIKGYREDVRQVVTHPANA 705
Query: 195 KNAIVPGIVLHIWTLEHRD 213
+ + PG ++ I +
Sbjct: 706 LSFLQPGRLVEISVNGKDN 724
Score = 33.3 bits (75), Expect = 0.062
Identities = 8/15 (53%), Positives = 9/15 (60%)
Query: 1 MAHTWPFELDVFQKQ 15
A T+PF LD FQ
Sbjct: 177 EARTYPFTLDPFQDT 191
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 131 bits (331), Expect = 2e-35
Identities = 35/142 (24%), Positives = 61/142 (42%), Gaps = 8/142 (5%)
Query: 15 QILFATETFAMGVNMPARTVAFDSTRKYDGS---ERRDLNPAEYIQMAGRAGRRGLDESG 71
+++ AT T A GVN+PARTV +++ ++ EY QM+GRAGR G D+ G
Sbjct: 340 KVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEIPIMEYKQMSGRAGRPGFDQIG 399
Query: 72 TVIIMCKEELPGQEALKKMMLGKQTKLVSQF---RLTYAMILNLMRVSMVNVEEMMSMSF 128
I++ +++ KK +L + S+ R Y +L ++ E+ +
Sbjct: 400 ESIVVVRDKEDVDRVFKKYVLSDVEPIESKLGSERAFYTFLLGILSAEGNLSEKQLENFA 459
Query: 129 KE--FGSRFRMQKNKEDLAQLE 148
E + + L
Sbjct: 460 YESLLAKQLVDVYFDRAIRWLL 481
>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding,
hydrolase, nucleotide- binding; 2.00A {Pyrococcus
furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*
Length = 720
Score = 113 bits (284), Expect = 4e-29
Identities = 30/101 (29%), Positives = 45/101 (44%), Gaps = 1/101 (0%)
Query: 15 QILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLDESGTVI 74
+ + AT T + G+N PA V +Y + E QM GRAGR DE G I
Sbjct: 322 KAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMERIPIIEVHQMLGRAGRPKYDEVGEGI 381
Query: 75 IMCKEELPGQEALKKMMLGKQTKLVSQFRLTYAMILNLMRV 115
I+ + P +E + + GK KL SQ + ++ +
Sbjct: 382 IVSTSDDP-REVMNHYIFGKPEKLFSQLSNESNLRSQVLAL 421
>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal
helicase, DNA repair,, DNA binding protein/DNA complex;
3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2
c.37.1.19 c.37.1.19 PDB: 2p6u_A
Length = 702
Score = 109 bits (274), Expect = 8e-28
Identities = 37/136 (27%), Positives = 69/136 (50%), Gaps = 7/136 (5%)
Query: 15 QILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLDESGTVI 74
+++ AT T A GVN+PAR V S ++DG + + +EY QMAGRAGR G+DE G I
Sbjct: 324 KVVVATPTLAAGVNLPARRVIVRSLYRFDGY-SKRIKVSEYKQMAGRAGRPGMDERGEAI 382
Query: 75 IMCKEELPGQEALKKMMLGKQTKLVSQFRLTYAMILNLMRV----SMVNVEEMMSMSFKE 130
I+ + + A+K+ + G+ ++ S+ + + + + + +EE+
Sbjct: 383 IIVGKRDR-EIAVKRYIFGEPERITSKLGVETHLRFHSLSIICDGYAKTLEELEDFFADT 441
Query: 131 FGSRFRMQKNKEDLAQ 146
F + + + + +
Sbjct: 442 FFFK-QNEISLSYELE 456
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 64.6 bits (156), Expect = 3e-12
Identities = 29/115 (25%), Positives = 47/115 (40%), Gaps = 10/115 (8%)
Query: 7 FELDVFQKQILFATETFAMGVNMPARTVAFDSTRKYDGSER-----RDLNPAEYIQMAGR 61
F +IL AT+ MG+N+ R + F S K +E+ + ++ +Q+AGR
Sbjct: 366 FNDPNDPCKILVATDAIGMGLNLSIRRIIFYSLIKPSINEKGERELEPITTSQALQIAGR 425
Query: 62 AGRRGLDES-GTVIIMCKEELPGQEALKKMMLGKQTKLVS-QFRLTYAMILNLMR 114
AGR G V M E+L LK+++ + + T I
Sbjct: 426 AGRFSSRFKEGEVTTMNHEDL---SLLKEILKRPVDPIRAAGLHPTAEQIEMFAY 477
>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 = 40.6 bits (94), Expect = 3e-04
Identities = 39/261 (14%), Positives = 70/261 (26%), Gaps = 78/261 (29%)
Query: 7 FELDVFQKQILFATETFAMGVNMPAR-TVAFDSTR-----------KYDGSERRD----- 49
F +V + F P+ T + R KY+ S R
Sbjct: 82 FVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVS-RLQPYLKL 140
Query: 50 ------LNPAEYIQ---MAGRAGRRGLDESGTVIIMCKEE-----LP--------GQEAL 87
L PA+ + + G +G+ + + +C +
Sbjct: 141 RQALLELRPAKNVLIDGVLG-SGKTWV-----ALDVCLSYKVQCKMDFKIFWLNLKNCNS 194
Query: 88 KKMMLGKQTKLVSQFRLTYAMILNLMRVSMVNVEEMMSMSFKEFGSRFRMQKN-KEDLAQ 146
+ +L KL+ Q + + + + + + R K + L
Sbjct: 195 PETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI-----QAELRRLLKSKPYENCLLV 249
Query: 147 LEAKVRQGGEVRQAQDTDVLFENFFD-QAK-----RFFEIRDSYMSLVEKTAEFKNAIVP 200
L V Q+ N F+ K RF ++ D +
Sbjct: 250 LL-------NV---QNAKAW--NAFNLSCKILLTTRFKQVTDFLSAATTT--------HI 289
Query: 201 GIVLHIWTLEHRDKLGLLLKV 221
+ H TL + LLLK
Sbjct: 290 SLDHHSMTLTPDEVKSLLLKY 310
Score = 34.8 bits (79), Expect = 0.022
Identities = 40/206 (19%), Positives = 64/206 (31%), Gaps = 57/206 (27%)
Query: 3 HTWPFELDVFQ---KQILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMA 59
H FE Q K IL V A FD D + L+ E
Sbjct: 5 HHMDFETGEHQYQYKDILS--------VFEDAFVDNFDCKDVQD-MPKSILSKEEI---- 51
Query: 60 GRAGRRGLDESGTVIIMCKEELPGQEALKKMMLGKQTKLVSQFRLTYAMILNLMRVSMVN 119
D IIM K+ + G L +L KQ ++V +F
Sbjct: 52 --------DH----IIMSKDAVSGTLRLFWTLLSKQEEMVQKF----------------- 82
Query: 120 VEEMMSMSFKEFGSRFRMQKNKEDLAQLEAKVRQGGEVRQAQDTDVLFENFFDQAKRFFE 179
VEE++ +++K S + E + + D L+ + AK
Sbjct: 83 VEEVLRINYKFLMSPIKT----------EQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVS 132
Query: 180 IRDSYMSLVEKTAEFKNAIVPGIVLH 205
Y+ L + E + A +++
Sbjct: 133 RLQPYLKLRQALLELRPA--KNVLID 156
Score = 33.7 bits (76), Expect = 0.058
Identities = 22/121 (18%), Positives = 40/121 (33%), Gaps = 25/121 (20%)
Query: 112 LMRVSMVNVEEMMSMSFKEFGSRFRMQKNKEDLAQLEAKVRQGGEVRQAQD--TDVL--F 167
L + + M F +F RF LE K+R A + L
Sbjct: 481 LKNIEHPERMTLFRMVFLDF--RF-----------LEQKIRHDSTAWNASGSILNTLQQL 527
Query: 168 ENFFDQAKRFFEIRDSYMSLVEKTAEFKNAIVPGIVLHIWTLEHRDKLGLLLKVDHRRAL 227
+ + + Y LV +F +P I ++ ++ D L + L + A+
Sbjct: 528 KFY---KPYICDNDPKYERLVNAILDF----LPKIEENLICSKYTDLLRIALMAED-EAI 579
Query: 228 Y 228
+
Sbjct: 580 F 580
Score = 32.5 bits (73), Expect = 0.11
Identities = 39/287 (13%), Positives = 80/287 (27%), Gaps = 109/287 (37%)
Query: 10 DVFQKQILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLDE 69
+V + F + + + +TR L+ A ++ L
Sbjct: 252 NVQNAKAW---NAFNLS----CKILL--TTR--FKQVTDFLSAATTTHISLDHHSMTLTP 300
Query: 70 SGTVIIMCK------EELPGQEAL------------------------KKMMLGKQTKLV 99
++ K ++LP +E L K + K T ++
Sbjct: 301 DEVKSLLLKYLDCRPQDLP-REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTII 359
Query: 100 SQF---------RLTY-------------AMILNLM------RVSMVNVEEMMSMS---- 127
R + ++L+L+ MV V ++ S
Sbjct: 360 ESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK 419
Query: 128 -FKEFGSR-----FRMQKNKEDLAQLEAKVRQGGEVRQAQDTDVLFENFFDQAKRFFEIR 181
KE ++ E+ L + + + D+D L + DQ F+
Sbjct: 420 QPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQ--YFY--- 474
Query: 182 DSYMSLVEKTAEFKNAIVPGIVLHIWTLEHRDKLGLLLKVDHRRALY 228
S+ I H+ +EH +++ L R ++
Sbjct: 475 -SH-----------------IGHHLKNIEHPERMTLF------RMVF 497
>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 = 31.6 bits (71), Expect = 0.27
Identities = 44/269 (16%), Positives = 73/269 (27%), Gaps = 84/269 (31%)
Query: 1 MAHTWPFELDVFQK--QILF-----ATETFAMGVNMPARTVAFDSTRKYDGSER-----R 48
+W +K +LF E + ++P + DS +G
Sbjct: 285 ETDSWESFFVSVRKAITVLFFIGVRCYEAYPN-TSLPPSILE-DSLENNEGVPSPMLSIS 342
Query: 49 DLNPAEYIQMAGRAGRRGLDESGTVIIMCKEELPGQEALKKMMLGKQTKLVSQFRLT--- 105
+L + +Q L V I +L G + ++
Sbjct: 343 NLTQEQ-VQDYVNKTNSHLPAGKQVEI----------SLVN---GAK-----NLVVSGPP 383
Query: 106 ---YAMILNLMRVSMVNVEEMMSMSFKE----FGSRF--------------RMQKNKEDL 144
Y + L L + + + + F E F +RF +DL
Sbjct: 384 QSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDL 443
Query: 145 AQLEAKVRQG-----------GEVRQAQDTDVLFENFFDQAKRFFEIRDSYMSLV--EKT 191
+ G + + E D IR V E T
Sbjct: 444 VKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSIS-ERIVDCI-----IRLP----VKWETT 493
Query: 192 AEFK-NAIV---PGIVLHIWTLEHRDKLG 216
+FK I+ PG + L HR+K G
Sbjct: 494 TQFKATHILDFGPGGASGLGVLTHRNKDG 522
Score = 31.2 bits (70), Expect = 0.32
Identities = 28/178 (15%), Positives = 62/178 (34%), Gaps = 74/178 (41%)
Query: 98 LVSQFRLTYAMILNLMRVSMVN-VEEMMSMSFKEFGSRFRMQKNKEDL----AQL----E 148
LV +F L Y + +L+ S V ++++++ EF + + ++ N D+ A+L +
Sbjct: 60 LVGKF-LGY--VSSLVEPSKVGQFDQVLNLCLTEFENCY-LEGN--DIHALAAKLLQEND 113
Query: 149 AKVRQGGEV------------------------RQAQDTDV----LF------ENFFDQA 174
+ + E+ R + + +F +++F+
Sbjct: 114 TTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFE-- 171
Query: 175 KRFFEIRDSY------------------MSLVEKTAEFKNAIVPGIVLHIWTLEHRDK 214
E+RD Y L+ T + + G+ + W LE+
Sbjct: 172 ----ELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEW-LENPSN 224
Score = 26.9 bits (59), Expect = 7.6
Identities = 12/78 (15%), Positives = 23/78 (29%), Gaps = 45/78 (57%)
Query: 153 QGGEVRQAQ----DTDVLFENF------FDQAKRFF------------------------ 178
QG Q Q D L++ +++A F
Sbjct: 1624 QGS---QEQGMGMD---LYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFG 1677
Query: 179 -----EIRDSYMSLVEKT 191
IR++Y +++ +T
Sbjct: 1678 GEKGKRIRENYSAMIFET 1695
>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA
repair, DNA recombina hydrolase; 2.90A {Pyrococcus
furiosus} SCOP: c.37.1.19 c.37.1.19
Length = 494
Score = 29.0 bits (64), Expect = 1.4
Identities = 16/79 (20%), Positives = 26/79 (32%), Gaps = 15/79 (18%)
Query: 15 QILFATETFAMGVNMPA--RTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLDESGT 72
+L AT G+++P V ++ + IQ GR GR G
Sbjct: 421 NVLVATSVGEEGLDVPEVDLVVFYEPVP----------SAIRSIQRRGRTGRHM---PGR 467
Query: 73 VIIMCKEELPGQEALKKMM 91
VII+ + +
Sbjct: 468 VIILMAKGTRDEAYYWSSR 486
>2ou5_A Pyridoxamine 5'-phosphate oxidase-related, FMN-BI; split
barrel-like fold, structural genomics, joint center FO
structural genomics, JCSG; HET: MSE FMN; 1.60A
{Jannaschia SP}
Length = 175
Score = 27.9 bits (61), Expect = 1.8
Identities = 10/70 (14%), Positives = 21/70 (30%), Gaps = 7/70 (10%)
Query: 160 AQDTDVLFENFFDQAKRFFEIRDSYMSLVEKTAEFKNAIVPGIVLHIWTLEHRDKLGLLL 219
D ++ + + E A ++ H+ ++ L L
Sbjct: 102 PGDPNLFAQLPEAARMNYQGPVPGTPLPAEPDATPNRFTR--LICHLSEIDV-----LHL 154
Query: 220 KVDHRRALYR 229
H+RA+Y
Sbjct: 155 TTPHQRAVYT 164
>3o8b_A HCV NS3 protease/helicase; ntpase, RNA, translocation, protein-RNA
compl protease/ntpase/helicase, hydrolase; 1.95A
{Hepatitis c virus} PDB: 3o8c_A* 3o8d_A* 3o8r_A* 4a92_A*
1cu1_A 2zjo_A* 1a1v_A* 1hei_A 3kqn_A* 3kql_A* 3kqu_A*
3kqh_A 3kqk_A 8ohm_A 2f55_A 1jr6_A 1onb_A
Length = 666
Score = 28.4 bits (63), Expect = 2.0
Identities = 8/35 (22%), Positives = 10/35 (28%), Gaps = 3/35 (8%)
Query: 51 NPAEYIQMAGRAGRRGLDESGTVIIMCKEELPGQE 85
+ Q GR GR G + E P
Sbjct: 489 DAVSRSQRRGRTGR---GRRGIYRFVTPGERPSGM 520
>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic
subunit]; helicase, flavivirus, DEAD-BOX, ATPase,
rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP:
c.37.1.14 c.37.1.14 PDB: 1ymf_A*
Length = 440
Score = 28.3 bits (63), Expect = 2.4
Identities = 14/67 (20%), Positives = 20/67 (29%), Gaps = 16/67 (23%)
Query: 13 QKQILFAT---ETFAMGVNMPARTV----------AFDSTRKYDGSERRDLNPAEYIQMA 59
+ + AT E G N+ V D RK ++ + Q
Sbjct: 223 KPDFILATDIAEM---GANLCVERVLDCRTAFKPVLVDEGRKVAIKGPLRISASSAAQRR 279
Query: 60 GRAGRRG 66
GR GR
Sbjct: 280 GRIGRNP 286
>1uxt_A Glyceraldehyde-3-phosphate dehydrogenase (NADP+); GAPN, ALDH,
glucose 1-phosphate, glycolysis, regulation, catatysis,
oxidoreductase; HET: G1P NAD; 2.2A {Thermoproteus tenax}
SCOP: c.82.1.1 PDB: 1uxp_A* 1uxq_A* 1uxr_A* 1uxn_A*
1uxu_A* 1uxv_A* 1ky8_A*
Length = 501
Score = 27.1 bits (61), Expect = 5.2
Identities = 9/50 (18%), Positives = 17/50 (34%), Gaps = 11/50 (22%)
Query: 136 RMQKNKEDLAQLEAKVRQG-------GEVRQAQDTDVLFENFFDQAKRFF 178
+++N + A++ G GEV+ A D K+
Sbjct: 89 IIERNLDVFAEVLVM-NAGKPKSAAVGEVKAAVDR---LRLAELDLKKIG 134
>1ygp_A Yeast glycogen phosphorylase; phosphorylated form,
glycosyltransferase; HET: PLP; 2.80A {Saccharomyces
cerevisiae} SCOP: c.87.1.4
Length = 879
Score = 27.2 bits (61), Expect = 5.4
Identities = 18/55 (32%), Positives = 23/55 (41%), Gaps = 8/55 (14%)
Query: 129 KEFGSRFRMQK--NKEDLAQLEAKVRQGGEVRQAQ-DTDVLFENFFD-QAKRFFE 179
KEF ++ K NK L L K G ++ + D L FD Q KR E
Sbjct: 561 KEFLKKWNQVKLNNKIRLVDLIKKENDGVDIINREYLDDTL----FDMQVKRIHE 611
>1hc7_A Prolyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP + L-proline
+ tRNA(Pro) AMP + PPI + L-prolyl-tRNA(Pro); 2.43A
{Thermus thermophilus} SCOP: c.51.1.1 d.68.5.1 d.104.1.1
PDB: 1h4q_A* 1h4t_A 1h4s_A
Length = 477
Score = 26.9 bits (60), Expect = 5.7
Identities = 10/40 (25%), Positives = 16/40 (40%), Gaps = 3/40 (7%)
Query: 168 ENFFDQAKRFFEIRDSYMSLVEKTAEFKNAIVPGIVLHIW 207
E + +A F R+ + V+ FK A+ G L
Sbjct: 390 EELYRRALAF---REDHTRKVDTYEAFKEAVQEGFALAFH 426
>4aj2_A L-lactate dehydrogenase A chain; oxidoreductase-inhibitor complex,
fragment-based LEAD genera inhibitors; HET: 52C; 1.75A
{Rattus norvegicus} PDB: 4aj1_A* 4aje_A* 4ajh_A* 4aji_A*
4ajj_A* 4ajk_A* 4ajl_A* 4ajn_A* 4ajo_A* 4al4_A* 4aj4_A*
4ajp_A* 1i10_A* 3h3f_A* 9ldt_A* 9ldb_A* 1t2f_A* 1i0z_A*
5ldh_A* 1ldm_A* ...
Length = 331
Score = 26.7 bits (60), Expect = 6.2
Identities = 9/40 (22%), Positives = 14/40 (35%), Gaps = 3/40 (7%)
Query: 116 SMVNVEEMMSMSFKEFGSRFRMQKNKEDLAQLEAKVRQGG 155
S VNV +S K + +KE + +V
Sbjct: 201 SGVNV---AGVSLKSLNPQLGTDADKEQWKDVHKQVVDSA 237
>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3
catalytic subunit; nucleotide-binding, capsid protein;
2.75A {Murray valley encephalitis virus}
Length = 673
Score = 26.8 bits (59), Expect = 7.0
Identities = 8/33 (24%), Positives = 12/33 (36%)
Query: 33 TVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRR 65
T+ + + S + A Q GR GR
Sbjct: 487 TILDEGEGRVILSVPSAITSASAAQRRGRVGRN 519
>1eca_A Erythrocruorin (AQUO Met); oxygen transport; HET: HEM; 1.40A
{Chironomus thummi thummi} SCOP: a.1.1.2 PDB: 1ecd_A*
1ecn_A* 1eco_A*
Length = 136
Score = 25.7 bits (56), Expect = 7.7
Identities = 11/63 (17%), Positives = 22/63 (34%), Gaps = 3/63 (4%)
Query: 166 LFENFFDQAKRFFEIRDSYMSLVEKTAEFK---NAIVPGIVLHIWTLEHRDKLGLLLKVD 222
+F+ +F + + ++ TA F+ N IV I L + +
Sbjct: 27 VFKADPSIMAKFTQFAGKDLESIKGTAPFETHANRIVGFFSKIIGELPNIEADVNTFVAS 86
Query: 223 HRR 225
H+
Sbjct: 87 HKP 89
>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.70A {Anas platyrhynchos}
Length = 936
Score = 26.8 bits (58), Expect = 8.0
Identities = 13/66 (19%), Positives = 25/66 (37%), Gaps = 12/66 (18%)
Query: 15 QILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLDESGTVI 74
++L AT G+++ + Y+ S N + IQ+ GR G I
Sbjct: 696 RLLIATSVADEGIDIVQ----CNLVVLYEYSG----NVTKMIQVRGRGRAAG----SKCI 743
Query: 75 IMCKEE 80
++ +
Sbjct: 744 LVTSKT 749
>3pqa_A Lactaldehyde dehydrogenase; structural genomics, protein structure
initiative, nysgrc, P biology, oxidoreductase; 1.50A
{Methanocaldococcus jannaschii} PDB: 3rhd_A*
Length = 486
Score = 26.4 bits (59), Expect = 8.3
Identities = 11/47 (23%), Positives = 20/47 (42%), Gaps = 11/47 (23%)
Query: 137 MQKNKEDLAQLEAKVRQG-------GEVRQAQDTDVLFENFFDQAKR 176
+++ KE+LA++ A G EV ++ T F+ K
Sbjct: 69 IKEKKEELAKILAI-DAGKPIKQARVEVERSIGT---FKLAAFYVKE 111
>3ven_A O-carbamoyltransferase TOBZ; antibiotic biosynthesis, substrate
assisted catalysis, subst channeling, adenylation; HET:
TLA; 1.57A {Streptoalloteichus tenebrarius} PDB: 3veo_A
3ves_A* 3vet_A* 3vew_A* 3ver_A* 3vf4_A* 3vf2_A* 3vex_A*
3vez_A*
Length = 576
Score = 26.8 bits (59), Expect = 8.5
Identities = 7/37 (18%), Positives = 13/37 (35%), Gaps = 3/37 (8%)
Query: 172 DQAKRFFEIRDS--YMSLVEKTAEFKNAIVPGIVLHI 206
+ + E+ YM + K +P +V H
Sbjct: 464 SVSDQVLEVDADFPYMIMTTKVRAAYAERLPSVV-HE 499
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 26.4 bits (57), Expect = 9.9
Identities = 14/85 (16%), Positives = 25/85 (29%), Gaps = 12/85 (14%)
Query: 13 QKQILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLDESGT 72
IL AT G+++ + Y+ N + IQ GR R
Sbjct: 452 DNNILIATSVADEGIDIAE----CNLVILYEYVG----NVIKMIQTRGRGRARD----SK 499
Query: 73 VIIMCKEELPGQEALKKMMLGKQTK 97
++ ++ M+ K
Sbjct: 500 CFLLTSSADVIEKEKANMIKEKIMN 524
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
0.323 0.136 0.387
Gapped
Lambda K H
0.267 0.0826 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,478,505
Number of extensions: 206721
Number of successful extensions: 617
Number of sequences better than 10.0: 1
Number of HSP's gapped: 610
Number of HSP's successfully gapped: 52
Length of query: 229
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 139
Effective length of database: 4,188,903
Effective search space: 582257517
Effective search space used: 582257517
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 56 (25.2 bits)