RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4300
(307 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 = 47.2 bits (111), Expect = 5e-06
Identities = 53/348 (15%), Positives = 100/348 (28%), Gaps = 106/348 (30%)
Query: 4 TTFGFLVEALAAINGYE-TLYERGVPFVPVEKKTLVA---------LSYMATQ-----LS 48
T F + + L+A +L + P E K+L+ L LS
Sbjct: 272 TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS 331
Query: 49 MRKIG----------DQF-NLADSTVWSCIDSFLTAMSQPQIQCQYIKWPTEEESVIIER 97
+ I D + ++ + + I+S L + P E +
Sbjct: 332 I--IAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE-----------PAE-----YRK 373
Query: 98 NFRALAKFPGVIGAIDGCHIE--------GKFSKDIRNDYNNRKCTQSMILQGVCTSNKL 149
F L+ FP HI K N+ S++ + +
Sbjct: 374 MFDRLSVFP------PSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQ---PKES 424
Query: 150 LTNIH-----VGCTGRN----HDAKVLSTSQIGRRIDAYGPTSLLYRDEY-------HL- 192
+I + N H ++ I + D+ Y D+Y HL
Sbjct: 425 TISIPSIYLELKVKLENEYALH-RSIVDHYNIPKTFDSDDL-IPPYLDQYFYSHIGHHLK 482
Query: 193 ---LGDSAYPLRTWCMVPYKNFGHMTEEEK-KYNTALSKTRVPIENVFGLIKGRWRRLKY 248
+ R + +F + E+K ++++ I N +K ++ Y
Sbjct: 483 NIEHPERMTLFRMV----FLDFRFL--EQKIRHDSTAWNASGSILNTLQQLK-FYK--PY 533
Query: 249 IDVGDPKRMAYI---------ISAACVLHNFCYLQDDVVEEIITHPIE 287
I DPK + I + + D++ + E
Sbjct: 534 ICDNDPKYERLVNAILDFLPKIEENLICSKYT----DLLRIALMAEDE 577
>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 = 42.7 bits (100), Expect = 1e-04
Identities = 39/194 (20%), Positives = 63/194 (32%), Gaps = 63/194 (32%)
Query: 116 HIEGKFSKDIRNDYNNRKCTQSMILQGVCTSNKLLTNIHVGCTGR--NHDAKVLS-TS-- 170
H G+ K IR +Y+ I+ G + K+ I+ T + +LS T
Sbjct: 1675 HFGGEKGKRIRENYSAMIF--ETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFT 1732
Query: 171 QIGRRIDAYGP----TSL-LYRDEYHLLGDSAYPLRTWCMVPYKNF--GH-MTEEEKKYN 222
Q P + D L++ ++P GH + E Y
Sbjct: 1733 Q---------PALTLMEKAAFED-----------LKSKGLIPADATFAGHSLGE----Y- 1767
Query: 223 TAL-SKTRV-PIENVFGLIKGR------------WRRLKYIDVG-DPKRMAYIISAACVL 267
AL S V IE++ ++ R R Y + +P R+A S +
Sbjct: 1768 AALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEAL- 1826
Query: 268 HNFCYLQDDVVEEI 281
VVE +
Sbjct: 1827 -------QYVVERV 1833
Score = 37.0 bits (85), Expect = 0.007
Identities = 63/404 (15%), Positives = 103/404 (25%), Gaps = 150/404 (37%)
Query: 4 TTFG-------FLVEALAAINGYETLYERGV-PFVPVEKKTLVALSYMATQLSMRKI--- 52
FG + E L + Y+T Y V + +TL L T L K+
Sbjct: 158 AIFGGQGNTDDYFEE-LRDL--YQT-YHVLVGDLIKFSAETLSELI--RTTLDAEKVFTQ 211
Query: 53 G--------------DQFNLADSTVWSCIDSFLTAMSQPQIQCQYIKWPTEE-------- 90
G D+ L + SC + ++ + + + + E
Sbjct: 212 GLNILEWLENPSNTPDKDYLLSIPI-SCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGA 270
Query: 91 ----ESVII---------ERNFRALAK------FPGVIGAIDGCH-------IEGKFSKD 124
+ ++ +F + F IG C+ + +D
Sbjct: 271 TGHSQGLVTAVAIAETDSWESFFVSVRKAITVLF--FIGV--RCYEAYPNTSLPPSILED 326
Query: 125 -IRNDYNN-------RKCTQSMILQGVCTSNKLL-TNIHVGCTGRN-HDAKVLSTSQIGR 174
+ N+ TQ + V +N L V + N V+S
Sbjct: 327 SLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVS------ 380
Query: 175 RIDAYGPTSLLYRDEYHLLGDSAYPLRTWCMVPY----KNFG----------H---MTEE 217
GP LY L A +P+ F H +
Sbjct: 381 -----GPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPA 435
Query: 218 EKKYNTALSKTRVPIEN------VFGLIKGR-WRRLKYIDVGDPKRMAYIISAACVLHNF 270
N L K V V+ G R L +
Sbjct: 436 SDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLS----------------GSISER- 478
Query: 271 CYLQDDVVEEIITHPI--ENQMHQR-------GPGGLRTSSRIS 305
+V+ II P+ E + GPGG +S +
Sbjct: 479 ------IVDCIIRLPVKWETTTQFKATHILDFGPGG---ASGLG 513
Score = 28.1 bits (62), Expect = 5.2
Identities = 26/159 (16%), Positives = 53/159 (33%), Gaps = 63/159 (39%)
Query: 12 ALAAINGY-------ETLYERG------VPFVPVEKKT--LVAL--SYMATQLS---MRK 51
ALA++ E ++ RG VP + + ++A+ +A S ++
Sbjct: 1769 ALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQY 1828
Query: 52 IGDQFNLADSTVWSCIDSFLTAMSQPQI-------QCQYIKWPTEEESVIIERNFRALAK 104
+ ++ + T W +I Q QY + + RAL
Sbjct: 1829 VVER--VGKRTGWLV-----------EIVNYNVENQ-QY----------VAAGDLRALDT 1864
Query: 105 FPGVIGAIDGCHIEGKFSKDIRNDYNNRKCTQSMILQGV 143
V+ F K ++ + + +S+ L+ V
Sbjct: 1865 VTNVL----------NFIK-LQK-IDIIELQKSLSLEEV 1891
>3fed_A Glutamate carboxypeptidase III; metallopeptidase, bimetallic active
site, N-glycosylation, C cation, chloride anion, zinc
IONS, dipept glycoprotein; HET: NAG BIX; 1.29A {Homo
sapiens} PDB: 3fec_A* 3fee_A* 3ff3_A* 2c6c_A* 2c6g_A*
2c6p_A* 2cij_A* 2jbj_A* 2jbk_A* 3rbu_A* 3bi1_A* 2oot_A*
2pvv_A* 2pvw_A* 2xei_A* 2or4_A* 3bi0_A* 3bhx_A* 3d7d_A*
3d7f_A* ...
Length = 707
Score = 31.9 bits (71), Expect = 0.28
Identities = 18/85 (21%), Positives = 27/85 (31%), Gaps = 7/85 (8%)
Query: 175 RIDAYGPTSLLYRDEYHLLGDSAYPLRTWCM---VPYKNFGHMTEEEKKYNTALS----K 227
RI + LG A P ++W V Y T + +
Sbjct: 248 RIPVHPIGYNDAEILLRYLGGIAPPDKSWKGALNVSYSIGPGFTGSDSFRKVRMHVYNIN 307
Query: 228 TRVPIENVFGLIKGRWRRLKYIDVG 252
I NV G I+G +Y+ +G
Sbjct: 308 KITRIYNVVGTIRGSVEPDRYVILG 332
>2uz8_A Eukaryotic translation elongation factor 1 epsilon-1; protein
biosynthesis, aminoacyl-tRNA synthetase, GST, nuclear
protein, RNA-binding protein; HET: MSE; 2.0A {Homo
sapiens}
Length = 174
Score = 30.1 bits (68), Expect = 0.56
Identities = 8/50 (16%), Positives = 20/50 (40%), Gaps = 2/50 (4%)
Query: 33 EKKTLVALSYMATQLSMRK--IGDQFNLADSTVWSCIDSFLTAMSQPQIQ 80
+ L + + L + G F LAD ++ + F+ ++ + +
Sbjct: 88 KNDIHTLLMDLNSYLEDKVYLTGYNFTLADILLYYGLHRFIVDLTVQEKE 137
>2bde_A Cytosolic IMP-GMP specific 5'-nucleotidase; alpha beta protein,
structural genomics, PSI, protein struct initiative;
2.90A {Legionella pneumophila} SCOP: c.108.1.23
Length = 470
Score = 29.3 bits (65), Expect = 1.7
Identities = 15/117 (12%), Positives = 30/117 (25%), Gaps = 26/117 (22%)
Query: 48 SMRKIGDQFNLADSTVWSCIDSFLTAMSQPQIQCQYIKWPTEEESVIIERNFRALAKFPG 107
+ I F++A ++ + Q I
Sbjct: 120 NYMAIDTSFSIAFCILYGQLVDLKDTNPDKMPSYQAI--------------------AQD 159
Query: 108 VIGAIDGCHIEGKFSKDIRNDYNN--RKCTQSMI-LQGVCTSNK---LLTNIHVGCT 158
V +D H +G I + + + + L+ K +LTN +
Sbjct: 160 VQYCVDKVHSDGTLKNIIIKNLKKYVIREKEVVEGLKHFIRYGKKIFILTNSEYSYS 216
>1g2q_A Adenine phosphoribosyltransferase 1; dimer, single domain,
catalytic loop; 1.50A {Saccharomyces cerevisiae} SCOP:
c.61.1.1 PDB: 1g2p_A
Length = 187
Score = 27.9 bits (63), Expect = 3.1
Identities = 11/29 (37%), Positives = 11/29 (37%), Gaps = 7/29 (24%)
Query: 7 GFLVEALAAINGYETLYERGVPFVPVEKK 35
GFL A GV FVPV K
Sbjct: 70 GFLFGPTLA-------LALGVGFVPVRKA 91
>1qb7_A APRT, adenine phosphoribosyltransferase; dinucleotide binding fold;
HET: ADE CIT; 1.50A {Leishmania donovani} SCOP: c.61.1.1
PDB: 1qb8_A* 1qcc_A* 1qcd_A 1mzv_A*
Length = 236
Score = 28.1 bits (63), Expect = 3.4
Identities = 10/42 (23%), Positives = 15/42 (35%), Gaps = 13/42 (30%)
Query: 7 GFLVEALAAINGYETLYERGVPFVPVEKK------TLVALSY 42
GFL + A E +PFV + K + + Y
Sbjct: 82 GFLFGPMIA-------VELEIPFVLMRKADKNAGLLIRSEPY 116
>1gnw_A Glutathione S-transferase; herbicide detoxification; HET: GTX;
2.20A {Arabidopsis thaliana} SCOP: a.45.1.1 c.47.1.5
PDB: 1bx9_A*
Length = 211
Score = 27.6 bits (62), Expect = 4.1
Identities = 11/41 (26%), Positives = 13/41 (31%), Gaps = 2/41 (4%)
Query: 33 EKKTLVALSYMATQLSMRK--IGDQFNLADSTVWSCIDSFL 71
E K L +L K G+ F L D I L
Sbjct: 140 EAKLAKVLDVYEARLKEFKYLAGETFTLTDLHHIPAIQYLL 180
>1zn8_A APRT, adenine phosphoribosyltransferase; glycosyltransferase,
purine salvage; HET: AMP; 1.76A {Homo sapiens} SCOP:
c.61.1.1 PDB: 1ore_A* 1zn7_A* 1zn9_A*
Length = 180
Score = 27.5 bits (62), Expect = 4.2
Identities = 8/29 (27%), Positives = 11/29 (37%), Gaps = 7/29 (24%)
Query: 7 GFLVEALAAINGYETLYERGVPFVPVEKK 35
GFL A E G+ V + K+
Sbjct: 68 GFLFGPSLA-------QELGLGCVLIRKR 89
>1l1q_A Adenine phosphoribosyltransferase; aprtase, giardia lamblia,
purine metabolism, cataly transferase; HET: 9DA; 1.85A
{Giardia intestinalis} SCOP: c.61.1.1 PDB: 1l1r_A*
Length = 186
Score = 27.2 bits (61), Expect = 5.9
Identities = 8/29 (27%), Positives = 12/29 (41%), Gaps = 7/29 (24%)
Query: 7 GFLVEALAAINGYETLYERGVPFVPVEKK 35
GF++ + A GV FV + K
Sbjct: 64 GFILGGIVA-------NSLGVGFVALRKA 85
>3ibh_A GST-II, saccharomyces cerevisiae GTT2; glutathione S-transferase,
transferase; HET: GSH; 2.10A {Saccharomyces cerevisiae}
PDB: 3erf_A* 3erg_A*
Length = 233
Score = 26.9 bits (60), Expect = 8.0
Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 2/38 (5%)
Query: 34 KKTLVALSYMATQLSMRK--IGDQFNLADSTVWSCIDS 69
K L + Y T L R GD F++AD TV + +
Sbjct: 157 DKALHGMHYFDTVLRERPYVAGDSFSMADITVIAGLIF 194
>2dy0_A APRT, adenine phosphoribosyltransferase; structural genomics,
NPPSFA, national project on protein structural and
functional analyses; 1.25A {Escherichia coli K12}
Length = 190
Score = 26.4 bits (59), Expect = 8.8
Identities = 12/29 (41%), Positives = 12/29 (41%), Gaps = 7/29 (24%)
Query: 7 GFLVEALAAINGYETLYERGVPFVPVEKK 35
GFL A A GV FVPV K
Sbjct: 74 GFLFGAPVA-------LGLGVGFVPVRKP 95
>3kas_A Transferrin receptor protein 1; transferrin receptor 1, arenavirus,
cell MEMB disulfide bond, endocytosis, HOST-virus inter
receptor, secreted, transmembrane; HET: NAG FUC BMA MAN;
2.40A {Homo sapiens} PDB: 1de4_C* 3s9l_A* 3s9m_A*
3s9n_A* 1cx8_A* 1suv_A 2nsu_A
Length = 640
Score = 27.1 bits (59), Expect = 8.8
Identities = 12/50 (24%), Positives = 18/50 (36%)
Query: 203 WCMVPYKNFGHMTEEEKKYNTALSKTRVPIENVFGLIKGRWRRLKYIDVG 252
W + K + + I N+FG+IKG Y+ VG
Sbjct: 237 WKTDSTCRMVTSESKNVKLTVSNVLKEIKILNIFGVIKGFVEPDHYVVVG 286
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 0.137 0.418
Gapped
Lambda K H
0.267 0.0498 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,704,763
Number of extensions: 272794
Number of successful extensions: 522
Number of sequences better than 10.0: 1
Number of HSP's gapped: 520
Number of HSP's successfully gapped: 15
Length of query: 307
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 214
Effective length of database: 4,105,140
Effective search space: 878499960
Effective search space used: 878499960
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: 57 (26.3 bits)