RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12835
(291 letters)
>1upk_A MO25 protein; transferase, armadillo; HET: MSE; 1.85A {Homo
sapiens} SCOP: a.118.1.15 PDB: 1upl_A 2wtk_A* 3gni_A*
Length = 341
Score = 213 bits (544), Expect = 8e-68
Identities = 113/154 (73%), Positives = 135/154 (87%)
Query: 6 TPTELLTRHKILCAEFLELNYDKVFSHYQRLLNSENYVTRRQSLKLLGELLLDRHNFTVM 65
T +LLTRHK+L AEFLE +YD+ FS Y++LL+SENYVT+RQSLKLLGELLLDRHNFT+M
Sbjct: 187 TFKDLLTRHKLLSAEFLEQHYDRFFSEYEKLLHSENYVTKRQSLKLLGELLLDRHNFTIM 246
Query: 66 TRYISNPYNLKLMMNMLKEKSRNIQFEAFHVFKVFVANPNKPKPILDILLRNQDLLVEFL 125
T+YIS P NLKLMMN+L++KSRNIQFEAFHVFKVFVANPNK +PILDILL+NQ L+EFL
Sbjct: 247 TKYISKPENLKLMMNLLRDKSRNIQFEAFHVFKVFVANPNKTQPILDILLKNQAKLIEFL 306
Query: 126 TRFHTDRSEDEQFNDEKAYLIKQIKELKPIAGDN 159
++F DR+EDEQFNDEK YL+KQI++LK A
Sbjct: 307 SKFQNDRTEDEQFNDEKTYLVKQIRDLKRPAQQE 340
Score = 105 bits (262), Expect = 2e-26
Identities = 62/102 (60%), Positives = 77/102 (75%), Gaps = 3/102 (2%)
Query: 189 MP-LFGKSQKSPAEVVKALKDAVNALEKGDKKGEKGDKKAQEDVSKNLLLIKNMLYGTAD 247
MP FGKS KSPA++VK LK+++ LEK D +K +KA E+VSKNL+ +K +LYGT +
Sbjct: 1 MPFPFGKSHKSPADIVKNLKESMAVLEKQDI-SDKKAEKATEEVSKNLVAMKEILYGTNE 59
Query: 248 AEPQTDIIVAQLAQELYNSNLLLLLIQNLNKIDFEGKKDVAQ 289
EPQT+ VAQLAQELYNS LL L+ +L IDFEGKKDVAQ
Sbjct: 60 KEPQTEA-VAQLAQELYNSGLLSTLVADLQLIDFEGKKDVAQ 100
>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 = 49.9 bits (118), Expect = 6e-07
Identities = 59/320 (18%), Positives = 111/320 (34%), Gaps = 92/320 (28%)
Query: 10 LLTRHKILCAEF----LELNYDKVFSHY-----QRLLNSENYVTRRQSLKLLGELLLDRH 60
LL++ + + +F L +NY + S Q + + Y+ +R L ++ +
Sbjct: 71 LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN 130
Query: 61 NFTVMTRYISNPY-NLKLMMNMLKE----------------KS-------RNIQFEAFHV 96
++R PY L+ L E K+ + + +
Sbjct: 131 ----VSR--LQPYLKLR---QALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMD 181
Query: 97 FKVF---VANPNKPKPILDILLRNQDLLV----EFLTRFHTDRSEDEQFNDEKAYLIKQI 149
FK+F + N N P+ +L++L Q LL + +R + + + +A L + +
Sbjct: 182 FKIFWLNLKNCNSPETVLEML---QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL 238
Query: 150 KELKPIAGDNQPSKNTGIRVLK-VQRIKNESQIFSL-IKIIMPLFGKSQKSPAEVVKALK 207
K +P +N + VL VQ F+L KI++ ++ K +
Sbjct: 239 KS--------KPYENCLL-VLLNVQN-AKAWNAFNLSCKILL----TTRF------KQVT 278
Query: 208 DAVNALEKGDKKGEKGDKKAQEDVSKNLLLIKNMLYGTADAEPQTDIIVAQLAQELYNSN 267
D ++A + D K+LLL Y D L +E+ +N
Sbjct: 279 DFLSAATTTHISLDHHSMTLTPDEVKSLLL----KY--------LDCRPQDLPREVLTTN 326
Query: 268 LLLL------LIQNLNKIDF 281
L + L D
Sbjct: 327 PRRLSIIAESIRDGLATWDN 346
Score = 45.6 bits (107), Expect = 1e-05
Identities = 32/178 (17%), Positives = 59/178 (33%), Gaps = 40/178 (22%)
Query: 110 ILDILLRNQDLLVEFLTRFHTDRSEDEQFNDEKAYLIKQIKELKPIAGDNQPSKNTGIRV 169
+ LL Q+ +V+ +F +E +L+ IK QPS T + +
Sbjct: 67 LFWTLLSKQEEMVQ---KF-----VEEVLRINYKFLMSPIKTE-----QRQPSMMTRMYI 113
Query: 170 LKVQRIKNESQIFSLIKIIMPLFGKSQKSPAEVVKALKDAVNALEKGDK---KGEKGDKK 226
+ R+ N++Q+F+ K S + L+ A+ L G G K
Sbjct: 114 EQRDRLYNDNQVFA----------KYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGK 163
Query: 227 ---AQEDVSKNLLLIKNMLYG----TADAEPQTDIIVAQLAQELYNSNLLLLLIQNLN 277
A + V + + M + + ++ L LL + N
Sbjct: 164 TWVALD-VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML------QKLLYQIDPNWT 214
Score = 38.7 bits (89), Expect = 0.002
Identities = 21/143 (14%), Positives = 48/143 (33%), Gaps = 16/143 (11%)
Query: 6 TPTELLTRHKILCAEFLELNYDKVFSHYQRLLNSENYVTRRQSLKLLGELLLDRHNFTVM 65
TP E+ + L ++L+ L E T + L ++ E + D
Sbjct: 299 TPDEVKS----LLLKYLDCRPQD--------LPREVLTTNPRRLSIIAESIRDGLATWDN 346
Query: 66 TRYISNPYNLKLMMNM-LKEKSRNIQFEAFHVFKVFVANPNKPKPILDILLRNQDLLV-- 122
+++ N L ++ L + F VF + + P +L ++ +
Sbjct: 347 WKHV-NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVM 405
Query: 123 EFLTRFHTDRSEDEQFNDEKAYL 145
+ + H ++Q + +
Sbjct: 406 VVVNKLHKYSLVEKQPKESTISI 428
>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 = 33.0 bits (74), Expect = 0.051
Identities = 8/26 (30%), Positives = 13/26 (50%), Gaps = 8/26 (30%)
Query: 141 EKAYLIKQIKEL----KPIAGDNQPS 162
EK + +K+L K A D+ P+
Sbjct: 18 EK----QALKKLQASLKLYADDSAPA 39
Score = 31.5 bits (70), Expect = 0.15
Identities = 9/34 (26%), Positives = 15/34 (44%), Gaps = 10/34 (29%)
Query: 173 QRIKN-ESQIFSLIKIIMPLFGKSQKSPAEVVKA 205
Q +K ++ SL K+ +PA +KA
Sbjct: 20 QALKKLQA---SL-KLYAD-----DSAPALAIKA 44
>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 = 31.9 bits (72), Expect = 0.26
Identities = 47/359 (13%), Positives = 107/359 (29%), Gaps = 130/359 (36%)
Query: 5 PTPTELLTRHKILCAEFLELNYD--KVFSHYQRLLN---------SENYVTRRQ-SLKLL 52
+L+ +E + D KVF+ +L ++Y+ S L+
Sbjct: 182 VLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLI 241
Query: 53 GELLLDRHNFTVMTRYIS-NPYNLKLMMNMLKEKSRNI-------------QFE------ 92
G ++ ++ V + + P L+ + S+ + F
Sbjct: 242 G--VIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKA 299
Query: 93 ---AFHV-------FKVFVANPN-----------KPKPILDILLRNQDLLVEFLTRFHTD 131
F + + P+ P P+L I Q+ + +++ + ++
Sbjct: 300 ITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSH 359
Query: 132 RSEDEQ-----FNDEKAYLIKQIKELKPIAGDNQPSK-----NTGIRVLKVQRIKNESQI 181
+Q N K + ++G P + N +R K ++S+I
Sbjct: 360 LPAGKQVEISLVNGAKNLV---------VSG---PPQSLYGLNLTLRKAKAPSGLDQSRI 407
Query: 182 FSLIKIIMPLFGKSQKSPAEV-----VKA------LKDAVNALEKGDKKGEKGDKKAQED 230
P S++ V + L A + + +D
Sbjct: 408 --------PF---SERKLKFSNRFLPVASPFHSHLLVPASDLIN--------------KD 442
Query: 231 VSKNLLLIK-NML----YGTADAEPQTDIIVAQLAQELYNSNLLLLLIQNL--NKIDFE 282
+ KN + + Y T D D+ + L + ++ ++ + + +E
Sbjct: 443 LVKNNVSFNAKDIQIPVYDTFDGS---DL------RVL-SGSISERIVDCIIRLPVKWE 491
>1b3u_A Protein (protein phosphatase PP2A); scaffold protein,
phosphorylation, heat repeat; 2.30A {Homo sapiens} SCOP:
a.118.1.2 PDB: 2ie4_A* 2ie3_A* 2npp_A* 3k7v_A* 3k7w_A*
3fga_A* 2pf4_A 2iae_A 2nym_A* 2nyl_A* 3dw8_A* 2pkg_A
3c5w_A
Length = 588
Score = 28.8 bits (64), Expect = 2.7
Identities = 9/95 (9%), Positives = 30/95 (31%), Gaps = 6/95 (6%)
Query: 27 DKVFSHYQRLLNSENYVTRRQSLKLLGELLLDRHNFTVMTRYISNPYNLKLMMNMLKEKS 86
++ + L++ N + ++ L ++ + + + L L + LK++
Sbjct: 323 SQILPCIKELVSDANQHVKSALASVIMGL------SPILGKDNTIEHLLPLFLAQLKDEC 376
Query: 87 RNIQFEAFHVFKVFVANPNKPKPILDILLRNQDLL 121
++ + +L +L
Sbjct: 377 PEVRLNIISNLDCVNEVIGIRQLSQSLLPAIVELA 411
>3c4i_A DNA-binding protein HU homolog; dimerization by four helix bundle
interaction, DNA condensat binding; 2.04A {Mycobacterium
tuberculosis}
Length = 99
Score = 26.8 bits (60), Expect = 3.0
Identities = 3/17 (17%), Positives = 7/17 (41%)
Query: 204 KALKDAVNALEKGDKKG 220
K V+ ++ +G
Sbjct: 83 AQFKAVVSGAQRLPAEG 99
>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 = 27.0 bits (60), Expect = 5.5
Identities = 13/74 (17%), Positives = 28/74 (37%), Gaps = 16/74 (21%)
Query: 153 KPIAGDNQPSKNTGIRVLKVQRIKN---------------ESQIFSLIKIIMPLFGKSQK 197
A ++ S G+ VL+V + K ++ IF M L G ++K
Sbjct: 134 NSAAQEDPNSIIAGMPVLEVWKSKQVIVMKRSLGVGYAAVDNPIFYKPNTAM-LLGDAKK 192
Query: 198 SPAEVVKALKDAVN 211
+ + ++++
Sbjct: 193 TCDALQAKVRESYQ 206
>2dyu_A Formamidase; AMIF, CEK, catalytic triad, helicobacter pylori
aliphatic amidase, hydrolase; 1.75A {Helicobacter
pylori} PDB: 2dyv_A 2e2l_A 2e2k_A
Length = 334
Score = 27.4 bits (61), Expect = 5.6
Identities = 8/41 (19%), Positives = 17/41 (41%), Gaps = 3/41 (7%)
Query: 226 KAQEDVSKNLLLIKNMLYGTADAEPQTDIIVAQLAQELYNS 266
+++D+ N+ I L+ T P ++I+ E
Sbjct: 27 NSRKDIDHNIESIIRTLHATKAGYPGVELII---FPEYSTQ 64
>2e5a_A Lipoyltransferase 1; lipoyl-AMP, ligase; HET: LAQ; 2.10A {Bos
taurus} PDB: 3a7u_A
Length = 347
Score = 27.2 bits (60), Expect = 7.3
Identities = 13/80 (16%), Positives = 24/80 (30%), Gaps = 1/80 (1%)
Query: 74 NLKLMMNMLKEKSRNIQFEAFHVFKVFVANPNKPKPILDILLRNQDLLVEFLTRFHTDRS 133
+ + ++LK + I+ A V N + P L + + E+ T D
Sbjct: 159 DGTFLSSLLKSPYQGIRSNATASTPALVKNLMEKDPTLTCEVVINAVATEYATSHQIDN- 217
Query: 134 EDEQFNDEKAYLIKQIKELK 153
N + I
Sbjct: 218 HIHLINPTDETVFPGINSKA 237
>1u6g_C TIP120 protein, CAND1; cullin repeat, heat repeat, ring finger,
ligase; 3.10A {Homo sapiens} SCOP: a.118.1.2 PDB: 4a0c_A
Length = 1230
Score = 27.0 bits (58), Expect = 9.7
Identities = 33/266 (12%), Positives = 78/266 (29%), Gaps = 25/266 (9%)
Query: 17 LCAEFLELNYDKVFSHY-QRLLNSENYVTRRQSLKLLGELLLDRHNFTVMTRYISNPYNL 75
L + + + H L +++ T R ++ + + R + Y+ +
Sbjct: 202 LVMSCGNIVFVDLIEHLLSELSKNDSMSTTRTYIQCIAAIS--RQAGHRIGEYLEK--II 257
Query: 76 KLMMNMLKEKSRNIQFEAFHVFKVFVANPNKPKPILDILLRNQDLLVEFLTRF--HTDRS 133
L++ ++ F+ FV PK + + ++ +++LT +
Sbjct: 258 PLVVKFCNVDDDELREYCIQAFESFV--RRCPKEVYPHVSTIINICLKYLTYDPNYNYDD 315
Query: 134 EDEQFNDEKAYLIKQIKELKPIAGDNQPSKNTGIRVLKVQRIKNESQIFS-----LIKII 188
EDE N A + + + +R + + K +
Sbjct: 316 EDEDENAMDADGGDDDDQGSDDEYSDDDDMSWKVRRAAAKCLDAVVSTRHEMLPEFYKTV 375
Query: 189 MP-----LFGKSQKSPAEVVKALKDAVNALEKGDKKGEKGDKKAQEDVSKNLL------L 237
P + + A+V A + D Q + +L +
Sbjct: 376 SPALISRFKEREENVKADVFHAYLSLLKQTRPVQSWLCDPDAMEQGETPLTMLQSQVPNI 435
Query: 238 IKNMLYGTADAEPQTDIIVAQLAQEL 263
+K + + +T + EL
Sbjct: 436 VKALHKQMKEKSVKTRQCCFNMLTEL 461
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
0.317 0.135 0.368
Gapped
Lambda K H
0.267 0.0553 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,152,397
Number of extensions: 245738
Number of successful extensions: 608
Number of sequences better than 10.0: 1
Number of HSP's gapped: 603
Number of HSP's successfully gapped: 32
Length of query: 291
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 198
Effective length of database: 4,105,140
Effective search space: 812817720
Effective search space used: 812817720
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 (21.7 bits)
S2: 57 (26.1 bits)