RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5108
(345 letters)
>3emn_X Voltage-dependent anion-selective channel protein; VDAC1,
eukaryotic membrane protein, beta barrel, AP ION
transport, mitochondrion, outer membrane; HET: MC3;
2.30A {Mus musculus} PDB: 2k4t_A 2jk4_A
Length = 295
Score = 179 bits (455), Expect = 2e-54
Identities = 102/237 (43%), Positives = 151/237 (63%), Gaps = 3/237 (1%)
Query: 110 FNIDVIKIDLKTKTDSGVEFNSGGTAQLESGKIFGTLESKYKAKNYAGLTFSEKWNTDNV 169
+ +IK+DLKTK+++G+EF S G+A E+ K+ G+LE+KY+ Y GLTF+EKWNTDN
Sbjct: 34 YGFGLIKLDLKTKSENGLEFTSSGSANTETTKVNGSLETKYRWTEY-GLTFTEKWNTDNT 92
Query: 170 LTTE--VSSNIIDGARLAANTSFAPQTGDKTVKLSGEYKNSLAAVNLESEFKSLNPVISA 227
L TE V + G +L ++SF+P TG K K+ YK + + +F P I
Sbjct: 93 LGTEITVEDQLARGLKLTFDSSFSPNTGKKNAKIKTGYKREHINLGCDVDFDIAGPSIRG 152
Query: 228 AGVLGYNGWLCGYSLKFDSKDAKLKANRLSLGFVGSDFVFHTNVDDGKLFGGTVYQKLGP 287
A VLGY GWL GY + F++ +++ + ++G+ +F HTNV+DG FGG++YQK+
Sbjct: 153 ALVLGYEGWLAGYQMNFETSKSRVTQSNFAVGYKTDEFQLHTNVNDGTEFGGSIYQKVNK 212
Query: 288 KLETGVQLAWSSESNDTKFAFGCKYDLENQASVRAKVNNASQIGLGYSQKLNDALSL 344
KLET V LAW++ +++T+F KY ++ A AKVNN+S IGLGY+Q L + L
Sbjct: 213 KLETAVNLAWTAGNSNTRFGIAAKYQVDPDACFSAKVNNSSLIGLGYTQTLKPGIKL 269
Score = 74.8 bits (183), Expect = 2e-15
Identities = 35/66 (53%), Positives = 49/66 (74%)
Query: 1 MAPPLYGDLGKHARDLFSKGYNIDVIKIDLKTKTDSGVEFNSGGTAQLESGKIFGTLESK 60
PP Y DLGK ARD+F+KGY +IK+DLKTK+++G+EF S G+A E+ K+ G+LE+K
Sbjct: 14 AVPPTYADLGKSARDVFTKGYGFGLIKLDLKTKSENGLEFTSSGSANTETTKVNGSLETK 73
Query: 61 YKAKNY 66
Y+ Y
Sbjct: 74 YRWTEY 79
Score = 35.1 bits (80), Expect = 0.024
Identities = 18/69 (26%), Positives = 37/69 (53%), Gaps = 1/69 (1%)
Query: 66 YAGWLCGYSLKFDSKDAKLKANRLSLGFVGSDFVFHTNVSSRQIFNIDVI-KIDLKTKTD 124
Y GWL GY + F++ +++ + ++G+ +F HTNV+ F + K++ K +T
Sbjct: 158 YEGWLAGYQMNFETSKSRVTQSNFAVGYKTDEFQLHTNVNDGTEFGGSIYQKVNKKLETA 217
Query: 125 SGVEFNSGG 133
+ + +G
Sbjct: 218 VNLAWTAGN 226
>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 = 40.4 bits (94), Expect = 0.001
Identities = 59/298 (19%), Positives = 108/298 (36%), Gaps = 89/298 (29%)
Query: 95 GSDFVFHTNVSSRQIFNIDVIKIDLKTKTDSG------VEFNSGGTAQLESGKIFGTLES 148
G D + T+ +++ ++N + D K G V N FG +
Sbjct: 1632 GMDL-YKTSKAAQDVWN----RADNHFKDTYGFSILDIVINNPVNLTIH-----FGGEKG 1681
Query: 149 KYKAKNYAGLTFS----EKWNTDNVL--TTEVSSNII---DGARLAANTSFAPQTGDKTV 199
K +NY+ + F K T+ + E S++ + L+A T F Q +
Sbjct: 1682 KRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSA-TQFT-QPALTLM 1739
Query: 200 KLSGEYKNSLAAVN-LESEFKSLNPVISA-AG-VLG-YNGWLCGYS--LKFDSKDA-KLK 252
AA L+S+ L P + AG LG Y L + + + ++
Sbjct: 1740 --------EKAAFEDLKSKG--LIPADATFAGHSLGEYAA-LASLADVMSIE--SLVEVV 1786
Query: 253 ANR--LSLGFVGSDFVFHTN-----VDDGKL---FGGTVYQKLGPKL--ETG--VQLAWS 298
R V D + +N ++ G++ F Q + ++ TG V++
Sbjct: 1787 FYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIV-- 1844
Query: 299 SESNDTKFAFGCKYDLENQ---AS--VRAKVNNASQIGLGYS-------QKLNDALSL 344
N Y++ENQ A+ +RA ++ + + L + +L +LSL
Sbjct: 1845 ---N---------YNVENQQYVAAGDLRA-LDTVTNV-LNFIKLQKIDIIELQKSLSL 1888
>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 = 33.7 bits (76), Expect = 0.093
Identities = 42/296 (14%), Positives = 86/296 (29%), Gaps = 90/296 (30%)
Query: 73 YSLKFDSKDAKLKANRLSLGFVGS---DF-VFHTNVSSRQIFNIDVIKIDLKTKTDSGVE 128
+ + F++ + + + + F + +F + I + + I + +K
Sbjct: 5 HHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDA---- 60
Query: 129 FNSGGTAQLESGKIFGTLESKYK-----------AKNYAGLTFSEKWNTDNVLTTEVSSN 177
+ ++F TL SK + NY L T+ + ++
Sbjct: 61 -------VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLM--SPIKTEQRQPSMMTRM 111
Query: 178 IIDG-ARLA-ANTSFAPQT---GDKTVKL--------SGEY----------KNSLAA-VN 213
I+ RL N FA +KL + K +A V
Sbjct: 112 YIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVC 171
Query: 214 LESEFKSLNPVISAAGVLGYNGWLCGYSL-KFDSKDAKLKA-NRLSLGFV-----GSDFV 266
L + + + WL +L +S + L+ +L SD
Sbjct: 172 LSYKVQCKMD----FKIF----WL---NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS 220
Query: 267 FHT--NVDDGK-----LFGGTVYQK----LGPKLETGVQLAWSSESNDTKFAFGCK 311
+ + + L Y+ L V ++++ + F CK
Sbjct: 221 SNIKLRIHSIQAELRRLLKSKPYENCLLVL-----LNV---QNAKAWNA-FNLSCK 267
>3prn_A Porin; integral membrane protein, pore eyelet mutant, membra
protein; HET: C8E; 1.90A {Rhodobacter blasticus} SCOP:
f.4.3.1 PDB: 1bh3_A* 1prn_A* 7prn_A* 6prn_A* 5prn_A*
2prn_A* 8prn_A* 1h6s_1
Length = 289
Score = 32.1 bits (72), Expect = 0.23
Identities = 32/264 (12%), Positives = 59/264 (22%), Gaps = 45/264 (17%)
Query: 102 TNVSSRQIFNIDVIKIDLKTKTDSGVEFN-------------------------SGGTAQ 136
+ I + I I T+TD GV F S
Sbjct: 20 VGLEDTIISSRLRINIVGTTETDQGVTFGAKLRMQWDDGDAFAGTAGNAAQFWTSYNGVT 79
Query: 137 LESGKIFGTLESK-YKAKNYAGLTFSEKWNTDNVLTTEVSSNIIDGARLAANTSFAPQT- 194
+ G + +S + G +S + + S GA N +
Sbjct: 80 VSVGNVDTAFDSVALTYDSEMGYEWSSFGDAQSSFFAYNSKYDASGALDNYNGIAVTYSI 139
Query: 195 GDKTVKLSGEYKNSLAAVNLESEFKSLNPVISAAGVLGYNGWLCGYSLKFDSKDAKLKAN 254
+ LS + +L +E ++ + + + + + N
Sbjct: 140 SGVNLYLSYVDPDQTVDSSLVTE--------EFGIAADWSNDMISLAAAYTTDAGGIVDN 191
Query: 255 RLSLGFVGSDFVF----------HTNVDDGKLFGGTVYQKLGPKLETGVQLAWSSESNDT 304
++ F + G G DT
Sbjct: 192 DIAFVGAAYKFNDAGTVGLNWYDNGLSTAGDQVTLYGNYAFGATTVRAYVSDIDRAGADT 251
Query: 305 KFAFGCKYDLENQASVRAKVNNAS 328
+ G Y V V +
Sbjct: 252 AYGIGADYQFAEGVKVSGSVQSGF 275
>3o4z_A Telomere length regulation protein TEL2; heat like helical repeats,
protein binding; 3.10A {Saccharomyces cerevisiae}
Length = 647
Score = 29.7 bits (66), Expect = 1.5
Identities = 10/62 (16%), Positives = 24/62 (38%), Gaps = 1/62 (1%)
Query: 50 SGKIFGTLESKYKAKNYAGWLCGYSLKFDSKDAKLKANRLSLGFVGSDFVFHTNVSSRQI 109
K+F L ++ Y G+L KF + + ++ S F+ + +++ +
Sbjct: 128 GSKLFNVLANRIDMAKYLGYLRL-QWKFLLESNETDPPGFLGEWLVSSFLLNPVLAADML 186
Query: 110 FN 111
Sbjct: 187 LG 188
>3oix_A Putative dihydroorotate dehydrogenase; dihydrooro oxidase; TIM
barrel, oxidoreductase; HET: MLY FMN; 2.40A
{Streptococcus mutans}
Length = 345
Score = 29.1 bits (65), Expect = 2.2
Identities = 9/47 (19%), Positives = 17/47 (36%), Gaps = 3/47 (6%)
Query: 192 PQTGDKTVKLSGEYKNSLAAVNLESEFKSL---NPVISAAGVLGYNG 235
P+ G+ + V+ + S N +++AAGV
Sbjct: 16 PRGSHMASMTGGQQMGRGSMVSTHTTIGSFDFDNCLMNAAGVYCMTR 62
>3gz3_A Dihydroorotate dehydrogenase, putative; dhodh, oxidoreductase; HET:
FMN ORO; 1.90A {Leishmania major} PDB: 3gye_A*
Length = 354
Score = 28.0 bits (63), Expect = 5.4
Identities = 7/19 (36%), Positives = 10/19 (52%), Gaps = 2/19 (10%)
Query: 217 EFKSLNPVISAAGVLGYNG 235
F NP ++AAGV+
Sbjct: 45 TFA--NPFMNAAGVMCTTT 61
>2e6f_A Dihydroorotate dehydrogenase; chagas disease, pyrimidine
biosynthesis, fumarate reductase, energy metabolism,
redox homeostasis, flavoprotein; HET: FMN OXC; 1.26A
{Trypanosoma cruzi} PDB: 2e6a_A* 2e6d_A* 2e68_A* 2djl_A*
2djx_A* 3c3n_A* 2b4g_A* 3c61_A* 3mhu_A* 3mjy_A*
Length = 314
Score = 27.9 bits (63), Expect = 5.5
Identities = 8/27 (29%), Positives = 12/27 (44%), Gaps = 3/27 (11%)
Query: 212 VNLESEFKSL---NPVISAAGVLGYNG 235
+ L+ NP ++AAGVL
Sbjct: 2 MCLKLNLLDHVFANPFMNAAGVLCSTE 28
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
0.313 0.132 0.378
Gapped
Lambda K H
0.267 0.0496 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,894,822
Number of extensions: 276212
Number of successful extensions: 377
Number of sequences better than 10.0: 1
Number of HSP's gapped: 374
Number of HSP's successfully gapped: 17
Length of query: 345
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 251
Effective length of database: 4,077,219
Effective search space: 1023381969
Effective search space used: 1023381969
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 58 (26.7 bits)