RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8528
(240 letters)
>3i9v_2 NADH-quinone oxidoreductase subunit 2; electron transport,
respiratory chain, cell flavoprotein, FMN, iron,
iron-sulfur, membrane; HET: FMN; 3.10A {Thermus
thermophilus} PDB: 2ybb_2* 2fug_2* 3iam_2* 3ias_2*
3m9s_2*
Length = 181
Score = 191 bits (487), Expect = 5e-62
Identities = 35/173 (20%), Positives = 64/173 (36%), Gaps = 40/173 (23%)
Query: 48 FTPDNKKRAEAIISIYPVGHERAAVIPLLDLAQRQHGWLPISAMHYVADFLNLPKMRVYE 107
F D + E + YP RAA++PLL Q++ GW+ + +A + V
Sbjct: 3 FFDDKQDFLEETFAKYPPEGRRAAIMPLLRRVQQEEGWIRPERIEEIARLVGTTPTEVMG 62
Query: 108 VATFYTMFIRKPIGEERIKSILQYHLNWCTTTPCWLRNSDAILEVIKKK----------- 156
VA+FY+ + P G+ YHL C T C L ++ + + + +
Sbjct: 63 VASFYSYYQFVPTGK--------YHLQVCATLSCKLAGAEELWDYLTETLGIGPGEVTPD 114
Query: 157 ---------CN-------MML-----ERQDLEPKDMEQIIDDLKAGKKPAPGP 188
C ++ + + +E ++ L+AGK+
Sbjct: 115 GLFSVQKVECLGSCHTAPVIQVNDEPYVECVTRARLEALLAGLRAGKRLEEIE 167
>2auv_A Potential NAD-reducing hydrogenase subunit; thioredoxin,
thiordoxin-like, oxidoreductase; NMR {Desulfovibrio
fructosovorans}
Length = 85
Score = 44.8 bits (107), Expect = 8e-07
Identities = 8/39 (20%), Positives = 19/39 (48%), Gaps = 8/39 (20%)
Query: 118 KPIGEERIKSILQYHLNWCTTTPCWLRNSDAILEVIKKK 156
P G+ Y ++ C T C+++ +D ++ K++
Sbjct: 2 VPKGK--------YPISVCMGTACFVKGADKVVHAFKEQ 32
>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 = 45.0 bits (106), Expect = 1e-05
Identities = 42/244 (17%), Positives = 68/244 (27%), Gaps = 96/244 (39%)
Query: 1 MLS----NLAKLASNVVRQNVRSLSTTQRLNHDAL------FV---------------HR 35
MLS ++ V + N L +++ +L V +
Sbjct: 338 MLSISNLTQEQVQDYVNKTN-SHLPAGKQV-EISLVNGAKNLVVSGPPQSLYGLNLTLRK 395
Query: 36 DTKDDNLD---VKFEFTPDNKKRAEAIISIY-PVG---HERAAVIPLLDLAQRQ-HGWLP 87
LD + F +R + + PV H LL A + L
Sbjct: 396 AKAPSGLDQSRIPFS------ERKLKFSNRFLPVASPFHS-----HLLVPASDLINKDLV 444
Query: 88 ISAMHYVADFLNLPKMRVYEVATFYTMFIRK---PIGEERIKSILQYHLNWCTTTPCWLR 144
+ + + A + +P VY+ + R I E + I++ + W TTT
Sbjct: 445 KNNVSFNAKDIQIP---VYDTFDGSDL--RVLSGSISERIVDCIIRLPVKWETTT----- 494
Query: 145 NSDA--ILEVIKKKCNMMLERQDLEPKDMEQIIDDLKAGKKPAPGPSGYTSGIGSQSGRF 202
A IL D GP G SG+G + R
Sbjct: 495 QFKATHIL--------------------------DF--------GP-GGASGLGVLTHRN 519
Query: 203 CQAR 206
Sbjct: 520 KDGT 523
Score = 31.2 bits (70), Expect = 0.35
Identities = 22/133 (16%), Positives = 41/133 (30%), Gaps = 57/133 (42%)
Query: 10 SNVVRQNVRSLSTTQRLNHDALFVH------RDTKDDNLDVKFEFTPDNKKRAEAI---- 59
++V N +L+ +H + +++ + FE D K + E I
Sbjct: 1662 LDIVINNPVNLT-----------IHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEI 1710
Query: 60 ---ISIYPVGHERAAVIPLLDL---AQ--------------RQHGWLPISAM---H---- 92
+ Y E+ LL Q + G +P A H
Sbjct: 1711 NEHSTSYTFRSEKG----LLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGE 1766
Query: 93 Y-----VADFLNL 100
Y +AD +++
Sbjct: 1767 YAALASLADVMSI 1779
Score = 27.3 bits (60), Expect = 6.5
Identities = 15/66 (22%), Positives = 20/66 (30%), Gaps = 10/66 (15%)
Query: 99 NLPKMRVYEVATFYTMFIRKPIGE--ERIKSILQYH----LNWCT--TTPCWLRNSDAIL 150
N M ++E + K E E S L+ T T P A
Sbjct: 1687 NYSAM-IFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLS-ATQFTQPALTLMEKAAF 1744
Query: 151 EVIKKK 156
E +K K
Sbjct: 1745 EDLKSK 1750
>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 = 38.3 bits (88), Expect = 0.002
Identities = 32/185 (17%), Positives = 59/185 (31%), Gaps = 43/185 (23%)
Query: 7 KLASNVVRQNVRSLSTTQRLNHDALFVHRDTKDDNLDVKFEF------TPDNKKRAEAII 60
KL + ++ +R L ++ + L V + ++ F T K+ + +
Sbjct: 224 KLRIHSIQAELRRLLKSKPYEN-CLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLS 282
Query: 61 SIYPVGHERAAVIPLLDLAQRQHGWLPISAMHYVADFLN-----LPKMRVYEVATFYTMF 115
+ I L P + +L+ LP+ EV T
Sbjct: 283 A------ATTTHISLDHH---SMTLTPDEVKSLLLKYLDCRPQDLPR----EVLTTNPRR 329
Query: 116 IRKPIGEERIKSILQYHLN-WCTTTPCWLR-NSDAILEVIKKKCNMMLERQDLEPKDMEQ 173
+ I E ++ L W W N D + +I+ N LEP + +
Sbjct: 330 L-SIIAES-----IRDGLATWDN----WKHVNCDKLTTIIESSLN------VLEPAEYRK 373
Query: 174 IIDDL 178
+ D L
Sbjct: 374 MFDRL 378
Score = 29.4 bits (65), Expect = 1.4
Identities = 36/229 (15%), Positives = 61/229 (26%), Gaps = 40/229 (17%)
Query: 20 LSTTQRLNHDALFVHRDTKDDNLDVKFEFTPDNKKRA---EAIISIYPVGHERAAVIPLL 76
Q D L V D DN D K D K E I I + + L
Sbjct: 11 TGEHQYQYKDILSVFEDAFVDNFDCK--DVQDMPKSILSKEEIDHIIMSKDAVSGTLRLF 68
Query: 77 DLAQRQHGWLPISAMHYVADFLNLPKMRVYEVATFYTMFIRKPIGEERIKSILQYHLNWC 136
+ V F+ Y+ F+ PI E+ + + +
Sbjct: 69 WTLLSKQE-------EMVQKFVEEVLRINYK-------FLMSPIKTEQRQPSMMTRMYIE 114
Query: 137 TTTPCWLRNSDAILEVIKKKCNMMLERQDLEPKDMEQIIDDLKAGKKPAPGPSGYTSGIG 196
+ N + +V K + R + ++ L +PA G+
Sbjct: 115 QRDRLY--NDN---QVFAK---YNVSR----LQPYLKLRQALL-ELRPAKNVLID--GVL 159
Query: 197 SQSGRFCQAREAYHDMTSLTGEPHGP-W----DSKRDFCIITMIIKTCT 240
SG+ A + W + ++ M+ K
Sbjct: 160 G-SGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY 207
>3fhk_A UPF0403 protein YPHP; disulfide isomerase, thioredoxin superfamily,
CXC motif, structural genomics, surface entropy
reduction, Ser, PSI-2; 2.30A {Bacillus subtilis}
Length = 147
Score = 26.8 bits (59), Expect = 5.2
Identities = 8/21 (38%), Positives = 14/21 (66%)
Query: 160 MLERQDLEPKDMEQIIDDLKA 180
+ R ++E DME+I+ +L A
Sbjct: 121 FIPRHEIEGHDMEEIMKNLTA 141
>1iyk_A Myristoyl-COA:protein N-myristoyltransferase; HET: MYA MIM; 2.30A
{Candida albicans} SCOP: d.108.1.2 d.108.1.2 PDB:
1iyl_A* 1nmt_A
Length = 392
Score = 26.6 bits (58), Expect = 7.9
Identities = 12/82 (14%), Positives = 25/82 (30%), Gaps = 7/82 (8%)
Query: 87 PISAMHYVADFLNLPKMRVYEVATFYTMFIRKPIGEERIKSILQYHLNWCTTTPCWLRNS 146
P++ Y +N K+ ++V F P + + + Y L +
Sbjct: 160 PLTTCRYQHRPINWSKL--HDVG-----FSHLPPNQTKSSMVASYTLPNNPKLKGLRPMT 212
Query: 147 DAILEVIKKKCNMMLERQDLEP 168
+ + ER D+
Sbjct: 213 GKDVSTVLSLLYKYQERFDIVQ 234
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 0.418
Gapped
Lambda K H
0.267 0.0530 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,715,756
Number of extensions: 223360
Number of successful extensions: 664
Number of sequences better than 10.0: 1
Number of HSP's gapped: 661
Number of HSP's successfully gapped: 20
Length of query: 240
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 149
Effective length of database: 4,160,982
Effective search space: 619986318
Effective search space used: 619986318
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: 56 (25.8 bits)