RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy702
(308 letters)
>3hsi_A Phosphatidylserine synthase; CDP- diacylglycerol--serine
O-phosphatidyltransferase, structura genomics, PSI-2;
HET: MSE; 2.20A {Haemophilus influenzae}
Length = 458
Score = 150 bits (380), Expect = 3e-42
Identities = 56/321 (17%), Positives = 106/321 (33%), Gaps = 45/321 (14%)
Query: 1 TRGDVNSKTLLSPIVKQFSHNCHVSFYHTPDLRWPLNRLLPHRYNELIGLQHMKFYLIDN 60
R + ++ + P++ + +P E+ G+ H+K ++ D+
Sbjct: 95 QRNLLGAEKSATNADWYCEQRQTYQLPDDPNMFF----GVPINTREVFGVLHVKGFVFDD 150
Query: 61 CVIITGANLSGDYFT----SRQDRYMIIQDHKPLSDFFDDLSRVLCKISFQLTPDGKFIL 116
V+ +GA+++ Y R DRY I H L+D D
Sbjct: 151 TVLYSGASINNVYLHQFEKYRYDRYQKIT-HAELADSM-----------VNFINDYLLDF 198
Query: 117 DKEFPLSPVSVTQRGEYLKRSRSLVLDMYDGYRTRNTTAVSPALSSTQPPDTWLAPLIEL 176
+PL + + E R+ D+ S + P ++PL L
Sbjct: 199 SAVYPLDVTNRPRTKEIRGNIRAYRKDLAQNGEY------SLKSAVKLPNVLSVSPLFGL 252
Query: 177 PPLHIQLDSRVTKLILSLARDGSCVSLGTGYFNLTQEYVRAMLD--KPRVNYSVLMAHPT 234
+L+ + L L + + + T YFN + + + +++
Sbjct: 253 GASGNELNQVIEDLFLQ-VQ--KKLVICTPYFNFPRTLQHKIATLLENGKRVEIIVGDKV 309
Query: 235 ANGFLGA----RGAAGGIPYAYTALAARFLSRVSNL----KVAMFEYVRSGWTYHAKGLW 286
AN F AG +PY Y + RF + ++ + + TYH KG+W
Sbjct: 310 ANDFYIPPEQPFKMAGALPYLYESNLRRFCEKFETQIESGQLVVRLWRDGDNTYHLKGVW 369
Query: 287 YSESPGSKPVLTLIGSPNFGI 307
+ L+ N
Sbjct: 370 VDDR------YILLTGNNLNP 384
>1byr_A Protein (endonuclease); phosphodiesterase,; 2.00A {Salmonella
typhimurium} SCOP: d.136.1.1 PDB: 1bys_A
Length = 155
Score = 37.4 bits (87), Expect = 0.002
Identities = 13/55 (23%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 43 RYNELIGLQHMKFYLIDNCVIITG-ANLSGDYFTSRQDRYMIIQDHKPLSDFFDD 96
R + +QH K ++DN + TG N + T + ++I + L++ F +
Sbjct: 85 RTDSNFPIQHDKVIIVDNVTVETGSFNFTKAAETKNSENAVVIWNMPKLAESFLE 139
>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 = 36.6 bits (84), Expect = 0.010
Identities = 43/257 (16%), Positives = 69/257 (26%), Gaps = 111/257 (43%)
Query: 70 SGDYFTSRQDRYMIIQDHKPL-SDFFDDLSRVLCKISFQLTPDGKFILDKEFPL------ 122
+ DYF +D Y Q + L D + L ++ + T D + + + +
Sbjct: 166 TDDYFEELRDLY---QTYHVLVGDLIKFSAETLSELI-RTTLDAEKVFTQGLNILEWLEN 221
Query: 123 ------------SPVS-----VTQRGEYL---------------------KRSRSLVL-- 142
P+S V Q Y+ S+ LV
Sbjct: 222 PSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAV 281
Query: 143 ---------DMYD------------GYRTRNTTAV-------------------SPALSS 162
+ G R SP LS
Sbjct: 282 AIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI 341
Query: 163 TQPPDTWLAPLIE-----LPP---LHIQL-DSRVTKLILSLARDGSCVSLGTGY-FNLTQ 212
+ + + LP + I L + L++S G SL Y NLT
Sbjct: 342 SNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGA-KNLVVS----GPPQSL---YGLNLTL 393
Query: 213 EYVRAM--LDKPRVNYS 227
+A LD+ R+ +S
Sbjct: 394 RKAKAPSGLDQSRIPFS 410
Score = 30.0 bits (67), Expect = 1.1
Identities = 26/167 (15%), Positives = 37/167 (22%), Gaps = 86/167 (51%)
Query: 103 KISFQLTPDGKFILDKEFPLSPVSVTQRGEYLKRSRSLVLDMYDG-----YRTRNTTAVS 157
+ F+ DGK +K F E + S S + T+ T
Sbjct: 1690 AMIFETIVDGKLKTEKIFK----------EINEHSTSY---TFRSEKGLLSATQFT---Q 1733
Query: 158 PALSSTQPPDTWLAPLIELPPLHIQLDSRVTKLILSLARDGSCVSLGTGYFNLTQEYVRA 217
PAL ++ A
Sbjct: 1734 PAL-----------------------------TLMEKA------------------AFED 1746
Query: 218 MLDKPRVNYSVLMA-HPTANGFLGARGAAGGIPYAYTALA--ARFLS 261
+ K + A H LG Y ALA A +S
Sbjct: 1747 LKSKGLIPADATFAGHS-----LGE----------YAALASLADVMS 1778
>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 = 35.6 bits (81), Expect = 0.023
Identities = 30/198 (15%), Positives = 51/198 (25%), Gaps = 63/198 (31%)
Query: 8 KTLLSPIVKQFSHNCHVSF---YHTPDLRWPLNRLLPHRYNELIGLQHMKFYLI-DNCVI 63
+ LL I ++ S ++ L RLL + + L+ N
Sbjct: 203 QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK-------PYENCLLVLLN--- 252
Query: 64 ITGANLSGDYFTSRQDRYMIIQDHKPLSDFFDDLSRVLCKISFQLTPDGKFILDKEFPLS 123
+Q+ K + F +LS CKI T
Sbjct: 253 --------------------VQNAKAWNAF--NLS---CKILL-TTRF------------ 274
Query: 124 PVSVTQRGEYLKRSRSLVLDMYDGYRTRNTTAVSPALSSTQPPDTWL-APLIELPPLHIQ 182
VT + + ++ L +L +LP +
Sbjct: 275 -KQVTDFLSAATTTHISLDHHSMTLTPDEVKSL---LLK------YLDCRPQDLPREVLT 324
Query: 183 LDSRVTKLILSLARDGSC 200
+ R +I RDG
Sbjct: 325 TNPRRLSIIAESIRDGLA 342
Score = 33.3 bits (75), Expect = 0.11
Identities = 29/225 (12%), Positives = 67/225 (29%), Gaps = 59/225 (26%)
Query: 20 HNCHVSFYHTPDLRWPLNRLLPHRYNELIGLQHMKFYLIDNCV--IITGANL-----SGD 72
H+ H+ F T + ++ +L + + + + + I++ + S D
Sbjct: 3 HHHHMDF-ETGEHQYQYKDILSVFEDAFV--DNFDCKDVQDMPKSILSKEEIDHIIMSKD 59
Query: 73 YFTSRQDRYMIIQDHKP---LSDFFDDLSRVLCKISFQLTPDGKFILDKEFPLSPVSVTQ 129
S R K + F +++ L + KF++
Sbjct: 60 A-VSGTLRLFWTLLSKQEEMVQKFVEEV----------LRINYKFLMSP----------I 98
Query: 130 RGEYLKRSRSLVLDMYDGYRTRNTTAVSPALSSTQPPDTWLAPLIELPPLHIQLDSRVTK 189
+ E R S++ MY R R ++ K
Sbjct: 99 KTEQ--RQPSMMTRMYIEQRDRLYNDNQV-----------------FAKYNVSRLQPYLK 139
Query: 190 LILSL--ARDGSCVSL----GTGYFNLTQEYVRAMLDKPRVNYSV 228
L +L R V + G+G + + + + ++++ +
Sbjct: 140 LRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI 184
Score = 31.7 bits (71), Expect = 0.37
Identities = 20/156 (12%), Positives = 39/156 (25%), Gaps = 41/156 (26%)
Query: 7 SKTLLSPIVKQFS---HNCHVSFYHTPDLRWPLNRLLPHRYNELIGLQHMKFYL--IDNC 61
+L+ K+ + + ++ + + L+R + YN +D
Sbjct: 413 KYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQ- 471
Query: 62 VIITGANLSGDYFTSRQDRYMIIQDH---KPLSDFFDDLSRVLCKISFQLTPDGKFILDK 118
YF Y I H + V F + K D
Sbjct: 472 -----------YF------YSHIGHHLKNIEHPERMTLFRMVFLDFRFL---EQKIRHDS 511
Query: 119 EFPLSPVSVTQRGEYLKRSRSLVLDM--YDGYRTRN 152
+ S+ + + + Y Y N
Sbjct: 512 TAWNASGSIL----------NTLQQLKFYKPYICDN 537
Score = 27.9 bits (61), Expect = 6.1
Identities = 26/172 (15%), Positives = 47/172 (27%), Gaps = 53/172 (30%)
Query: 158 PALSSTQPPDTWLAPLIELPPLHIQLDSRVTKLILSLARDGSCVSLGTGYFNLTQEYVRA 217
LS + +I S +L +L + Q++V
Sbjct: 44 SILSKEEIDH-----IIMSKDA----VSGTLRLFWTLLSKQE---------EMVQKFVEE 85
Query: 218 MLDKPRVNYSVLMA-------HPTAN--GFLGARGAAGGIPYAYTALAARFLSR---VSN 265
+L NY LM+ P+ ++ R + +SR
Sbjct: 86 VLRI---NYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFA---KYNVSRLQPYLK 139
Query: 266 LKVAMFEYVRSGW-TYHAKGLWYSESPGS-KPVLT--------LIGSPNFGI 307
L+ A+ E + G+ GS K + + +F I
Sbjct: 140 LRQALLELRPAKNVLID--GV-----LGSGKTWVALDVCLSYKVQCKMDFKI 184
>1y8c_A S-adenosylmethionine-dependent methyltransferase; structural
genomics, protein structure initiative, PSI; 2.50A
{Clostridium acetobutylicum} SCOP: c.66.1.43
Length = 246
Score = 29.3 bits (66), Expect = 1.3
Identities = 9/23 (39%), Positives = 11/23 (47%)
Query: 95 DDLSRVLCKISFQLTPDGKFILD 117
DDL + +S L G FI D
Sbjct: 119 DDLKKYFKAVSNHLKEGGVFIFD 141
>1yxm_A Pecra, peroxisomal trans 2-enoyl COA reductase; perioxisomes, fatty
acid synthesis, short-chain dehydrogenases/reductases,
structural genomics; HET: ADE; 1.90A {Homo sapiens}
SCOP: c.2.1.2
Length = 303
Score = 29.2 bits (66), Expect = 1.8
Identities = 10/57 (17%), Positives = 16/57 (28%), Gaps = 17/57 (29%)
Query: 205 TGYFNLTQEYVRAMLDKPR---VNYSVLMAHPTANGFLGARGAAGGIPYAYTALAAR 258
TG F + + + + + VN V G + AAR
Sbjct: 133 TGTFYMCKAVYSSWMKEHGGSIVNIIV----------PTKAGFPLAVHSG----AAR 175
>3d2l_A SAM-dependent methyltransferase; ZP_00538691.1, structural G joint
center for structural genomics, JCSG; HET: MSE; 1.90A
{Exiguobacterium sibiricum 255-15}
Length = 243
Score = 28.5 bits (64), Expect = 2.5
Identities = 6/23 (26%), Positives = 10/23 (43%)
Query: 95 DDLSRVLCKISFQLTPDGKFILD 117
D+ + + LT GK + D
Sbjct: 114 ADVKQTFDSAARLLTDGGKLLFD 136
>1wzn_A SAM-dependent methyltransferase; structural genomics, riken
structural genomics/proteomics initiative, RSGI; HET:
SAH; 1.90A {Pyrococcus horikoshii} SCOP: c.66.1.43
Length = 252
Score = 28.3 bits (63), Expect = 3.0
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 95 DDLSRVLCKISFQLTPDGKFILD 117
+DL ++ K++ L P G FI D
Sbjct: 122 EDLRKLFSKVAEALKPGGVFITD 144
>3edm_A Short chain dehydrogenase; structural genomics, oxidoreductase,
PSI-2, P structure initiative; 2.30A {Agrobacterium
tumefaciens str}
Length = 259
Score = 28.3 bits (64), Expect = 3.3
Identities = 11/48 (22%), Positives = 16/48 (33%), Gaps = 9/48 (18%)
Query: 205 TGYFNLTQEYVRAMLDKPR-VNYSVLMAHPTANGFLGARGAAGGIPYA 251
T F + + M V +S + G G G G + YA
Sbjct: 120 TSLFLTAKTALPKMAKGGAIVTFS------SQAGRDG--GGPGALAYA 159
>3au7_A TIAS, putative uncharacterized protein; ATP hydrolysis, RNA binding
protein; 2.60A {Archaeoglobus fulgidus} PDB: 3amt_A*
3amu_A*
Length = 402
Score = 28.0 bits (62), Expect = 3.9
Identities = 28/141 (19%), Positives = 48/141 (34%), Gaps = 11/141 (7%)
Query: 129 QRGEYLKRSRSLVLDMYDGYRTRNTTAVSPALSSTQPPDTWLAPLIELPPLHIQLDSRVT 188
+ G+ + R + L+ Y+TR AVS + + + E+ H LD T
Sbjct: 52 ELGKVIGFPRLIRLNPTIPYKTRGNGAVSFLV-EVDDVGELVDVVNEVIIEHAMLDDEKT 110
Query: 189 KLILSLARDGSCVSLGTGYFN-----LTQEYVRAMLDKPRVNYSVLMAHPTANGFLGARG 243
+ V L L + ++ K + + H G +GA
Sbjct: 111 NPGAVFVDEELAVKLKPFADKAIKDVLQIDEALFVIGKYFI---PHLRHKKGRGLIGALA 167
Query: 244 AAGGIPYAYT--ALAARFLSR 262
A G +T +A R+ R
Sbjct: 168 AVGAELEDFTLELIAYRYPER 188
>2hpi_A DNA polymerase III alpha subunit; POL-beta-like
nucleotidyltransferase fold, transferase; HET: DNA;
3.00A {Thermus aquaticus} PDB: 2hpm_A* 3e0d_A*
Length = 1220
Score = 28.0 bits (63), Expect = 4.6
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 11/53 (20%)
Query: 184 DSRVTKLILSLARDGSCVSLGTGYFNLT----QEYVRAMLDKPRVNYSVLMAH 232
D L L LA+D TGY NL + Y+ +KPR++ +L H
Sbjct: 90 DGGYFHLTL-LAKDF------TGYQNLVRLASRAYLEGFYEKPRIDREILREH 135
>2xsg_A Ccman5; hydrolase, mannosidase; HET: B3P; 2.00A {Cellulosimicrobium
cellulans}
Length = 774
Score = 27.8 bits (62), Expect = 4.9
Identities = 23/97 (23%), Positives = 32/97 (32%), Gaps = 9/97 (9%)
Query: 210 LTQEYVRAMLDKPRVNYSVLMAHPTANGFLGARGAAGGIPYAYTALAARFLSRVSNLKVA 269
LTQ++ RA+ K N + +A G Y L + N
Sbjct: 606 LTQKWARAIYTKETWNRYIATGSSSAVPSGGGEFTPPLKTKVYRLDPRGMLPTMDNDAGT 665
Query: 270 MFEYVRSGWT-YHAKGLWYSESPGSKPVLTLIGSPNF 305
M S A GL + + GS +GSP F
Sbjct: 666 M-----STMFVAAAVGL-FPVTAGS-SQF-QVGSPFF 694
>3bxo_A N,N-dimethyltransferase; desosamine, sugar, carbohydrate,
antibiotic, SAM, adoMet; HET: SAM UPP; 2.00A
{Streptomyces venezuelae}
Length = 239
Score = 27.4 bits (61), Expect = 6.0
Identities = 4/23 (17%), Positives = 11/23 (47%)
Query: 95 DDLSRVLCKISFQLTPDGKFILD 117
++L + + L P G +++
Sbjct: 118 EELGAAVASFAEHLEPGGVVVVE 140
>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 = 26.8 bits (58), Expect = 6.4
Identities = 4/13 (30%), Positives = 6/13 (46%), Gaps = 2/13 (15%)
Query: 287 YSESPGSKPVLTL 299
Y+ S P L +
Sbjct: 32 YA--DDSAPALAI 42
>3g2m_A PCZA361.24; SAM-dependent methyltransferase, glycopeptide
antibiotics biosynthesis, structural genomics; 2.00A
{Amycolatopsis orientalis} PDB: 3g2o_A* 3g2p_A* 3g2q_A*
Length = 299
Score = 27.2 bits (60), Expect = 7.7
Identities = 7/23 (30%), Positives = 10/23 (43%)
Query: 95 DDLSRVLCKISFQLTPDGKFILD 117
D + + L P GKF+L
Sbjct: 167 ADRRGLYASVREHLEPGGKFLLS 189
>3d3w_A L-xylulose reductase; uronate cycle, short-chain
dehydrogenase/reductase(SDR) superfamily, glucose
metabolism, acetylation, carbohydrate metabolism; HET:
NAP; 1.87A {Homo sapiens} PDB: 1wnt_A* 1pr9_A*
Length = 244
Score = 26.7 bits (60), Expect = 8.4
Identities = 7/51 (13%), Positives = 13/51 (25%), Gaps = 13/51 (25%)
Query: 205 TGYFNLTQEYVRAMLDKPR----VNYSVLMAHPTANGFLGARGAAGGIPYA 251
++Q R ++ + VN S + R Y
Sbjct: 109 RAVIQVSQIVARGLIARGVPGAIVNVSSQCSQ---------RAVTNHSVYC 150
>3pfg_A N-methyltransferase; N,N-dimethyltransferase, SAM binding,
DTDP-linked sugar BIND transferase; HET: SAM TLO; 1.35A
{Streptomyces fradiae} PDB: 3pfh_A* 3px3_A* 3px2_A*
Length = 263
Score = 26.7 bits (59), Expect = 9.3
Identities = 5/23 (21%), Positives = 12/23 (52%)
Query: 95 DDLSRVLCKISFQLTPDGKFILD 117
+L L + + + PDG +++
Sbjct: 128 AELDAALERFAAHVLPDGVVVVE 150
>3thr_A Glycine N-methyltransferase; GNMT, folate, methyltransferase
binding, liver cytosol, transferase-transferase
inhibitor C; HET: C2F TAM; 2.00A {Rattus norvegicus}
PDB: 3ths_A* 1xva_A* 1d2c_A 1kia_A* 1nbh_A* 1bhj_A*
2idj_A 2idk_A* 1d2g_A 1d2h_A* 1nbi_A* 1r8x_A 1r8y_A
1r74_A* 2azt_A*
Length = 293
Score = 26.9 bits (59), Expect = 9.3
Identities = 5/27 (18%), Positives = 10/27 (37%)
Query: 91 SDFFDDLSRVLCKISFQLTPDGKFILD 117
+ L I+ + P G ++D
Sbjct: 148 KGDQSEHRLALKNIASMVRPGGLLVID 174
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 0.138 0.426
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: 4,774,202
Number of extensions: 282534
Number of successful extensions: 793
Number of sequences better than 10.0: 1
Number of HSP's gapped: 785
Number of HSP's successfully gapped: 27
Length of query: 308
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 215
Effective length of database: 4,105,140
Effective search space: 882605100
Effective search space used: 882605100
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 (26.1 bits)