RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11212
(448 letters)
>4atg_A TAF6; transcription, TFIID; HET: NHE; 1.89A {Antonospora locustae}
Length = 196
Score = 195 bits (496), Expect = 1e-60
Identities = 37/168 (22%), Positives = 79/168 (47%), Gaps = 12/168 (7%)
Query: 273 ATHELSVEQQLYYKEITEACVGSDEGRRFEALQSLATDPGLHEMLPRMCTFIAEGVKVNV 332
+H L E QLY+ +I + A++ L + GL +++P I+E + +
Sbjct: 1 GSHMLPKELQLYFDKILSMIKSD---MKDIAIECLEKESGLQQLVPYFIQHISELILKSF 57
Query: 333 VQNNLALLIYLMRMVKALLDNQSLYLEKYLHELLPSILSCIVSKQLCGRPEADNHWALRD 392
+L + + +L+ N+ ++++ YLH++LPS+L+C++ K + +R
Sbjct: 58 --KEAEVLKTCIALYFSLIKNKHVFIDPYLHQILPSLLTCVIGKSIVDDD-------VRK 108
Query: 393 FASRLLTQVSKNFNTSTNNIQTRVTRLLSNAINDPKINFPSLYGAIAG 440
++ ++ + ++ S + RV + L DP + S YGA+
Sbjct: 109 MSADIVKYIYDTYSRSYKTLAPRVLKTLKGVWMDPNRSEDSQYGALYC 156
>1taf_B TFIID TBP associated factor 62; transcription initiation, histone
fold, complex (TWO transcr factors); 2.00A {Drosophila
melanogaster} SCOP: a.22.1.3
Length = 70
Score = 59.1 bits (143), Expect = 1e-11
Identities = 26/44 (59%), Positives = 36/44 (81%)
Query: 3 IYGTSFSIESMKVIAESIGIPNLPDDAAKELSDNITYCCKVIIQ 46
+YG+S S ESMKVIAESIG+ +L DDAAKEL+++++ K I+Q
Sbjct: 2 LYGSSISAESMKVIAESIGVGSLSDDAAKELAEDVSIKLKRIVQ 45
Score = 35.6 bits (82), Expect = 0.002
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 128 SFKCMSHSKRVKLLPVDIDDALNM 151
+ K M+H+KR KL DID +L +
Sbjct: 47 AAKFMNHAKRQKLSVRDIDMSLKV 70
>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 = 49.7 bits (118), Expect = 2e-06
Identities = 79/496 (15%), Positives = 137/496 (27%), Gaps = 186/496 (37%)
Query: 15 VIAESIGIPNLPDDAAKELSDNITYCCKVIIQPIYGLTVSQFLPFKHAS----------G 64
+ A+ + + KEL N + +P + S F+ G
Sbjct: 104 LAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSAL--FRAVGEGNAQLVAIFG 161
Query: 65 G-G---------RELHFTDEKEV-DF----EDLLTNLNPKSALETHLRTH------WLAI 103
G G R+L+ T V D + L+ L + + T WL
Sbjct: 162 GQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWL-- 219
Query: 104 EGVQPTVPENPPPVD--KSAQKLESISFKC-----MSH----SKRVKLLPVDIDDALNMK 152
P N P D S IS ++H +K + P ++ L
Sbjct: 220 -----ENPSNTPDKDYLLSI----PISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLK-- 268
Query: 153 NIEPIYGLT-------VSQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPKSALETHL 205
G T + + A E F + + A+
Sbjct: 269 ------GATGHSQGLVTAVAI----AETDSWE---------SFFV-----SVRKAIT--- 301
Query: 206 RTHWLAIEGV--QPTVPE-NPPP--VDKSAQKLESIDPISKLGKKDKDTSGKPT---SAK 257
L GV P + PP ++ S + E G P+ S
Sbjct: 302 ---VLFFIGVRCYEAYPNTSLPPSILEDSLENNE----------------GVPSPMLSIS 342
Query: 258 LEKLRNVETVHVKQLATHELSVEQQLYYKEITEACVGSDEGRRF------EALQSLAT-- 309
V+ +V + +H L +Q+ I + V + ++L L
Sbjct: 343 NLTQEQVQD-YVNKTNSH-LPAGKQVE---I--SLVNGA--KNLVVSGPPQSLYGLNLTL 393
Query: 310 -----DPGL---------------HEMLPRMCTF-------IAEGVKVNVVQNNLALLIY 342
GL + LP F ++ + ++V+NN++
Sbjct: 394 RKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAK 453
Query: 343 LMRM-VKALLDNQSLYLEKYLHELLPSILSCIVSKQLCGRPEADNHW--ALR-------D 392
+++ V D L + I+ CI+ + W + D
Sbjct: 454 DIQIPVYDTFDGSDL--RVLSGSISERIVDCIIRLPV--------KWETTTQFKATHILD 503
Query: 393 F----ASRLLTQVSKN 404
F AS L +N
Sbjct: 504 FGPGGASGLGVLTHRN 519
Score = 34.3 bits (78), Expect = 0.11
Identities = 52/355 (14%), Positives = 100/355 (28%), Gaps = 162/355 (45%)
Query: 1 MDIYGTSFSIESMKVIAESIGIPNLPDDAAKELSDNITYCCKVIIQPIYGLTVSQFL--- 57
MD+Y TS AA+++ + + YG ++ +
Sbjct: 1633 MDLYKTS--------------------KAAQDVWNR----ADNHFKDTYGFSILDIVINN 1668
Query: 58 PFK---HASG-GGRELH-----FTDEKEVD----FEDLLTNLNPKSALETHLRTHWLAIE 104
P H G G+ + E VD E + +N S T + + +
Sbjct: 1669 PVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYT-----FRSEK 1723
Query: 105 GV-------QPTVPENPPPVDKSAQKLESIS-FKCMS-------------HSKRVKL--- 140
G+ QP A L + F+ + HS L
Sbjct: 1724 GLLSATQFTQP------------ALTLMEKAAFEDLKSKGLIPADATFAGHS----LGEY 1767
Query: 141 ---------LPVDIDDALNMKNIEPIY--GLTVSQFLPFKH---------ASGGGR-ELH 179
+ I+ + + ++ G+T+ +P A GR
Sbjct: 1768 AALASLADVMS--IESLVEV-----VFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAAS 1820
Query: 180 FTDEKEVDFEDLLT----------NLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKS 229
F+ E + + N N +E Q V +
Sbjct: 1821 FSQEALQYVVERVGKRTGWLVEIVNYN---------------VENQQ-YV---------A 1855
Query: 230 AQKLESIDPISKLGKKDKDTSGKPTSAKLEKLRNVETVHVKQLATHELSVEQQLY 284
A L ++D ++ + KL+ ++ + +++ + E VE L+
Sbjct: 1856 AGDLRALDTVTNV-------------LNFIKLQKIDIIELQKSLSLE-EVEGHLF 1896
>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 = 40.2 bits (93), Expect = 0.001
Identities = 51/394 (12%), Positives = 108/394 (27%), Gaps = 130/394 (32%)
Query: 80 EDLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPP-PVDKSAQKLESISFKCMSHSKRV 138
E +L L L + +W + + N + +L + +
Sbjct: 196 ETVLEMLQ---KLLYQIDPNWTS----RSDHSSNIKLRIHSIQAELRRL----LKSKPYE 244
Query: 139 KLLPVDIDDALNMKNIEP------IYGLT----VSQFLPFKHASGGGRELHFTDEKEVDF 188
L V + + N K I T V+ FL +
Sbjct: 245 NCLLV-LLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAAT------------TTHISL 291
Query: 189 EDLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKSAQKLESIDP--ISKLGKKD 246
+ L P L +L P++ P + +P +S + +
Sbjct: 292 DHHSMTLTPDEVKS--LLLKYLDCR------PQDLPREVLT------TNPRRLSIIAESI 337
Query: 247 KDTSGKPTSAKLEKLRNVETVHVKQLATH-ELSVEQQLYYKEITEACVGSDEGRR-FEAL 304
+D L N + V+ +L T E S+ E R+ F+ L
Sbjct: 338 RD--------GLATWDNWKHVNCDKLTTIIESSLNVL-----------EPAEYRKMFDRL 378
Query: 305 QSLATDPGLHEMLPRMCTFIAEGVKV--NVVQNNLALL----IY--LMRMV-----KALL 351
+ P + + L+L+ I +M +V +L+
Sbjct: 379 ----------SVFP-------PSAHIPTIL----LSLIWFDVIKSDVMVVVNKLHKYSLV 417
Query: 352 DNQSLYLEKYLHELLPSILSCIVSKQLCGRPEADNHWALRDFASRLLTQVSKNFNTSTNN 411
+ Q + + L + + +N +AL ++ + +++
Sbjct: 418 EKQPKESTISIPSI-----------YLELKVKLENEYALHR---SIVDHYNIPKTFDSDD 463
Query: 412 IQTRVTRL---------LSNAINDPKIN-FPSLY 435
+ L N + ++ F ++
Sbjct: 464 LIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVF 497
Score = 35.6 bits (81), Expect = 0.034
Identities = 30/231 (12%), Positives = 65/231 (28%), Gaps = 60/231 (25%)
Query: 72 TDEKEVDFEDLLTNLNPKSALETHLRTHWLAIEGVQPTVPENPPPVDKSAQK----LESI 127
D + D ++ L+ S +E + ++I + E ++ ++
Sbjct: 397 FDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIY---LELKVKLENEYALHRSIVDHY 453
Query: 128 SFKCMSHSKRVKLLPVDIDDALNMKNIEPIYGLTVSQFLPFKHASGGGRELHFTDEKEVD 187
+ S L+P +D Y + H E+
Sbjct: 454 NIPKTFDSD--DLIPPYLDQY--------FY-----SHIGH-HLKNIEH-----PERMTL 492
Query: 188 FEDLLTNLNPKSALETHLR---THWLAIEGVQPTVPENPPPVDKSAQKLESIDPISKLGK 244
F + + LE +R T W A + T+ + + + DP +
Sbjct: 493 FRMVFLDFR---FLEQKIRHDSTAWNASGSILNTLQQ----LKFYKPYICDNDPKYERLV 545
Query: 245 KDKDTSGKPTSAKLEK-LRNVETVHVK-------QLATHELSVEQQLYYKE 287
+ L +E + ++A L E + ++E
Sbjct: 546 NA-----------ILDFLPKIEENLICSKYTDLLRIA---LMAEDEAIFEE 582
Score = 30.2 bits (67), Expect = 1.7
Identities = 29/185 (15%), Positives = 60/185 (32%), Gaps = 46/185 (24%)
Query: 280 EQQLYYKEITEACVGSDEGRRFEALQSLATDPGLHEM--LPRMCTFIAEGVKVNVVQNNL 337
E Q YK+I FE + + ++ +P+ E + ++ +
Sbjct: 13 EHQYQYKDILSV---------FE--DAFVDNFDCKDVQDMPKS-ILSKEEIDHIIMSKDA 60
Query: 338 ALLIYLMRMVKALLDNQSLYLEKYLHELL----PSILSCIVSKQLCGRPEADNHWALRDF 393
R+ LL Q ++K++ E+L ++S I K +P
Sbjct: 61 VSGTL--RLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPI--KTEQRQPSMMT------- 109
Query: 394 ASRLLTQVSKNFNTSTNNIQTRVTRL---------LSNAINDPKINFPSLYGAIAGEG-- 442
+ Q + +N + + V+RL L + + G + G G
Sbjct: 110 -RMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNV---LIDG-VLGSGKT 164
Query: 443 -LVTE 446
+ +
Sbjct: 165 WVALD 169
>3do9_A UPF0302 protein BA_1542/GBAA1542/BAS1430; uncharacterized protein,
structural genomics, protein structure initiative, PSI;
2.75A {Bacillus anthracis}
Length = 188
Score = 31.4 bits (71), Expect = 0.35
Identities = 25/132 (18%), Positives = 58/132 (43%), Gaps = 13/132 (9%)
Query: 35 DNITYCCKVIIQPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPKSALET 94
++ YC + ++ + + F FK + TD ++ F D+ N + ++
Sbjct: 51 EHAKYCPRGLVMSANCVKDTPFHFFKQ------NVMTTDAEKS-FHDIRLNRDEDIYIQL 103
Query: 95 HLRTHW-----LAIEGVQPTVPENPPPVDKSAQKLESISFKCMSHSKRVKLLPVDIDDAL 149
+ ++ + +A+ P +P++ +K E + + +R +LL ID+AL
Sbjct: 104 NFKSSFQNANYVAVLEENPYLPKHIEVNEKDRLLAERFLEESVFSFRRERLLK-QIDEAL 162
Query: 150 NMKNIEPIYGLT 161
+ ++ E + LT
Sbjct: 163 DKQDKEAFHRLT 174
>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 = 30.7 bits (68), Expect = 0.54
Identities = 9/38 (23%), Positives = 17/38 (44%), Gaps = 11/38 (28%)
Query: 119 KSAQKLESISFKCMSHSKRVKLLPVDIDDALNMK-NIE 155
++ +KL++ +KL D AL +K +E
Sbjct: 20 QALKKLQA----------SLKLYADDSAPALAIKATME 47
>3nqj_A Histone H3-like centromeric protein A; alpha helix, histone fold,
centromere, DNA binding protein; 2.10A {Homo sapiens}
Length = 82
Score = 28.4 bits (63), Expect = 1.2
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 131 CMSHSKRVKLLPVDIDDALNMKNIE 155
H+ RV L P D+ A ++ +E
Sbjct: 54 LTLHAGRVTLFPKDVQLARRIRGLE 78
>3nqu_A Histone H3-like centromeric protein A; alpha helix, histone fold,
centromere, DNA binding protein; 2.50A {Homo sapiens}
PDB: 3an2_A
Length = 140
Score = 29.5 bits (65), Expect = 1.3
Identities = 8/26 (30%), Positives = 13/26 (50%)
Query: 130 KCMSHSKRVKLLPVDIDDALNMKNIE 155
H+ RV L P D+ A ++ +E
Sbjct: 111 LLTLHAGRVTLFPKDVQLARRIRGLE 136
>3r45_A Histone H3-like centromeric protein A; histone fold, centromere,
CENP-A, histone chaperone, hjurp; 2.60A {Homo sapiens}
Length = 156
Score = 29.6 bits (65), Expect = 1.4
Identities = 8/26 (30%), Positives = 13/26 (50%)
Query: 130 KCMSHSKRVKLLPVDIDDALNMKNIE 155
H+ RV L P D+ A ++ +E
Sbjct: 127 LLTLHAGRVTLFPKDVQLARRIRGLE 152
>2yfv_A Histone H3-like centromeric protein CSE4; cell cycle, kinetochore,
centromere, histone chaperone, BUDD; 2.32A
{Kluyveromyces lactis nrrl y-1140} PDB: 2yfw_A
Length = 100
Score = 27.8 bits (61), Expect = 2.5
Identities = 5/23 (21%), Positives = 12/23 (52%)
Query: 130 KCMSHSKRVKLLPVDIDDALNMK 152
H+KR+ ++ D+ A ++
Sbjct: 78 LLALHAKRITIMRKDMQLARRIR 100
>2hue_B Histone H3; mini beta sheet, elongated beta sandwhich, DNA binding
prote; 1.70A {Xenopus laevis}
Length = 77
Score = 27.2 bits (60), Expect = 3.1
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 131 CMSHSKRVKLLPVDIDDALNMK 152
C H+KRV ++P DI A ++
Sbjct: 52 CAIHAKRVTIMPKDIQLARRIR 73
>2fsv_C NAD(P) transhydrogenase subunit beta; NAD(P) transhydrogenase
subunits, oxidoreductas; HET: NAD NAP; 2.30A
{Rhodospirillum rubrum} SCOP: c.31.1.4 PDB: 1e3t_A*
1hzz_C* 1nm5_C* 1u28_C* 1u2d_C* 1u2g_C* 2fr8_C* 2frd_C*
Length = 203
Score = 28.6 bits (64), Expect = 3.7
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 4/30 (13%)
Query: 26 PDDAAKELSDNITYCCKVIIQPIYGLTVSQ 55
+DAA + KVII P YG+ V+Q
Sbjct: 36 AEDAAFIMK----NASKVIIVPGYGMAVAQ 61
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 29.1 bits (65), Expect = 3.7
Identities = 19/61 (31%), Positives = 25/61 (40%), Gaps = 14/61 (22%)
Query: 144 DIDDALNMKNIEPIY--------GLTVSQFLPFKHASGGGRELHFTDEK-EVDFEDLLTN 194
D++ AL IE IY G + +PF G EL D K E +LTN
Sbjct: 545 DVE-AL----IEFIYDTEKNGGLGWDLDAIIPFAAIPEQGIELEHIDSKSEFAHRIMLTN 599
Query: 195 L 195
+
Sbjct: 600 I 600
Score = 27.9 bits (62), Expect = 8.8
Identities = 15/55 (27%), Positives = 22/55 (40%), Gaps = 9/55 (16%)
Query: 41 CKVIIQPIY--------GLTVSQFLPFKHASGGGRELHFTDEK-EVDFEDLLTNL 86
+ +I+ IY G + +PF G EL D K E +LTN+
Sbjct: 546 VEALIEFIYDTEKNGGLGWDLDAIIPFAAIPEQGIELEHIDSKSEFAHRIMLTNI 600
>1djl_A Transhydrogenase DIII; rossmann fold dinucleotide binding fold
reverse binding of N oxidoreductase; HET: NAP; 2.00A
{Homo sapiens} SCOP: c.31.1.4 PDB: 1pt9_A* 1u31_A*
Length = 207
Score = 28.2 bits (63), Expect = 4.0
Identities = 8/30 (26%), Positives = 13/30 (43%), Gaps = 4/30 (13%)
Query: 26 PDDAAKELSDNITYCCKVIIQPIYGLTVSQ 55
D+A + +II P YGL ++
Sbjct: 35 LDNAIDMIR----EANSIIITPGYGLCAAK 60
>2bru_C NAD(P) transhydrogenase subunit beta; paramagnetic
transhydrogenase, inner membrane, membrane,
oxidoreductase, transmembrane; HET: NAD NAP; NMR
{Escherichia coli}
Length = 186
Score = 28.3 bits (63), Expect = 4.0
Identities = 10/30 (33%), Positives = 15/30 (50%), Gaps = 4/30 (13%)
Query: 26 PDDAAKELSDNITYCCKVIIQPIYGLTVSQ 55
++ A+ L VII P YG+ V+Q
Sbjct: 20 AEETAELLK----NSHSVIITPGYGMAVAQ 45
>1d4o_A NADP(H) transhydrogenase; nucleotide-binding fold,
protein-NADP(H) complex, inverted binding of NADP(H),
oxidoreductase; HET: NAP; 1.21A {Bos taurus} SCOP:
c.31.1.4
Length = 184
Score = 28.3 bits (63), Expect = 4.2
Identities = 8/26 (30%), Positives = 11/26 (42%)
Query: 30 AKELSDNITYCCKVIIQPIYGLTVSQ 55
D I +II P YGL ++
Sbjct: 12 LDNAIDMIREANSIIITPGYGLCAAK 37
>1pno_A NAD(P) transhydrogenase subunit beta; nucleotide binding fold,
oxidoreductase; HET: NAP; 2.10A {Rhodospirillum rubrum}
SCOP: c.31.1.4 PDB: 1pnq_A* 1xlt_C* 2oor_C* 1ptj_C*
2oo5_C*
Length = 180
Score = 28.2 bits (63), Expect = 4.2
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 4/30 (13%)
Query: 26 PDDAAKELSDNITYCCKVIIQPIYGLTVSQ 55
+DAA + KVII P YG+ V+Q
Sbjct: 13 AEDAAFIMK----NASKVIIVPGYGMAVAQ 38
>2i2q_A Cofilin; N-terminal serine, actin-binding protein; HET: LDA; 1.72A
{Schizosaccharomyces pombe}
Length = 137
Score = 27.2 bits (60), Expect = 5.7
Identities = 11/56 (19%), Positives = 24/56 (42%), Gaps = 5/56 (8%)
Query: 37 ITYC---CKVIIQPIYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPK 89
I++ + + +Y + + +G G ++ TD EV +E +L + K
Sbjct: 84 ISWSPDVAPIKSKMVYSSSKDTLR--RAFTGIGTDIQATDFSEVAYETVLEKVTRK 137
Score = 26.8 bits (59), Expect = 8.5
Identities = 10/42 (23%), Positives = 19/42 (45%), Gaps = 2/42 (4%)
Query: 157 IYGLTVSQFLPFKHASGGGRELHFTDEKEVDFEDLLTNLNPK 198
+Y + + +G G ++ TD EV +E +L + K
Sbjct: 98 VYSSSKDTLR--RAFTGIGTDIQATDFSEVAYETVLEKVTRK 137
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
0.316 0.133 0.386
Gapped
Lambda K H
0.267 0.0602 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,709,602
Number of extensions: 400475
Number of successful extensions: 960
Number of sequences better than 10.0: 1
Number of HSP's gapped: 955
Number of HSP's successfully gapped: 25
Length of query: 448
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 351
Effective length of database: 3,993,456
Effective search space: 1401703056
Effective search space used: 1401703056
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 59 (26.8 bits)