RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15702
(259 letters)
>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 = 38.1 bits (88), Expect = 0.002
Identities = 30/202 (14%), Positives = 48/202 (23%), Gaps = 93/202 (46%)
Query: 3 TPELLRAASLFICTGPREQFTI------TELNSLKTYLDEGGSLLIALGEEGERGSSTNI 56
L RA G + I T+ Y +E
Sbjct: 142 NSALFRAVG----EGNAQLVAIFGGQGNTD-----DYFEE-------------------- 172
Query: 57 NFLLEQYGVSVNSDCVVRCHFYKYFHPKECFIGNGVLNRGIAEALHRDVTEDSLASSLHF 116
L + Y Y I + AE L + A +
Sbjct: 173 --LRDLYQT--------------YHVLVGDLI------KFSAETLSELIRTTLDAEKV-- 208
Query: 117 VYPYGASLNVIK--------PSVPVFSTGSASCPLNRPVVSF--Y--------------R 152
+ G LN+++ P + SCPL V+ Y R
Sbjct: 209 -FTQG--LNILEWLENPSNTPDKDYLLSIPISCPLIG-VIQLAHYVVTAKLLGFTPGELR 264
Query: 153 DKTRG----GKLVVLGSAALFS 170
+G + +V +A +
Sbjct: 265 SYLKGATGHSQGLV--TAVAIA 284
Score = 29.6 bits (66), Expect = 1.1
Identities = 19/134 (14%), Positives = 41/134 (30%), Gaps = 50/134 (37%)
Query: 13 FICTGPREQFTITELNSLKTYLDEGGSLLIALGEE------GERGSSTNINFLLEQYGVS 66
+ +GP + L L L + G + ER + FL V+
Sbjct: 377 LVVSGPPQ-----SLYGLNLTLRK---AKAPSGLDQSRIPFSERKLKFSNRFL----PVA 424
Query: 67 VNSDCVVRCHFYKYFHPKECFIGNGVLNRGIAEALHRDVTEDSLASSLHFVYPYGASLNV 126
FH L ++ +++D+ +++++ + + +
Sbjct: 425 SP------------FHSH--------LLVPASDLINKDLVKNNVSFN-------AKDIQI 457
Query: 127 IKPSVPVFSTGSAS 140
PV+ T S
Sbjct: 458 -----PVYDTFDGS 466
>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 = 31.1 bits (69), Expect = 0.17
Identities = 11/43 (25%), Positives = 16/43 (37%), Gaps = 14/43 (32%)
Query: 20 EQFTITEL-NSLKTYLDEGGSLLIALGEEGERGSSTNINFLLE 61
E+ + +L SLK Y D+ AL I +E
Sbjct: 18 EKQALKKLQASLKLYADDSAP---ALA----------IKATME 47
>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 = 31.4 bits (70), Expect = 0.30
Identities = 32/264 (12%), Positives = 58/264 (21%), Gaps = 64/264 (24%)
Query: 15 CTGPREQFTITELNSLKTYLDEGGSLLIALGEEGERGSSTNINFLLEQYGVSVNSDCVVR 74
C P + L L +D + + S+ + Q + R
Sbjct: 192 CNSPET--VLEMLQKLLYQIDPNWT------SRSDHSSNIKLRIHSIQAEL--------R 235
Query: 75 CHFYKYFHPKECFIGNGVLNRGIAEALHRDV-------TED-SLASSLHFVYPYGASLNV 126
+ + V N A ++ T + L SL+
Sbjct: 236 RLLKSKPYENCLLVLLNVQNAKAWNAF--NLSCKILLTTRFKQVTDFLSAATTTHISLDH 293
Query: 127 IKP------SVPVFSTGSASCPLNRPVVSFYRDKTRGGKLVVLGSAALFSD-----QYLE 175
+ L+ R+ + A D +
Sbjct: 294 HSMTLTPDEVKSLL----LKY-LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWK 348
Query: 176 REENDKMRQIILSFL--LTDDINLNQIDA-----DDADVTDYTLVPEIRYTAAQLKSTL- 227
DK+ II S L L D A + L S +
Sbjct: 349 HVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILL------------SLIW 396
Query: 228 --MEFQEVLDDYTRFFSLDLSKVD 249
+ +V+ + L +
Sbjct: 397 FDVIKSDVMVVVNKLHKYSLVEKQ 420
>1m5y_A SurviVal protein, surviVal protein SURA; surviVal protein A,
periplasmic molecular chaperone, membrane protein
folding, GRAM negative bacteria; 3.00A {Escherichia
coli} SCOP: a.223.1.2 d.26.1.1 d.26.1.1 PDB: 2pv3_A
Length = 408
Score = 29.3 bits (65), Expect = 1.5
Identities = 14/61 (22%), Positives = 23/61 (37%)
Query: 177 EENDKMRQIILSFLLTDDINLNQIDADDADVTDYTLVPEIRYTAAQLKSTLMEFQEVLDD 236
++ +R I+ L+ D I L ++D L I A Q TL + + L
Sbjct: 41 PDDATLRHQIMERLIMDQIILQMGQKMGVKISDEQLDQAIANIAKQNNMTLDQMRSRLAY 100
Query: 237 Y 237
Sbjct: 101 D 101
>3rht_A (gatase1)-like protein; structural genomics, PSI-biology, midwest
center for structu genomics, MCSG, unknown function;
HET: MSE; 1.83A {Planctomyces limnophilus}
Length = 259
Score = 27.6 bits (60), Expect = 4.0
Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 1/50 (2%)
Query: 3 TPELLRAASLFICTG-PREQFTITELNSLKTYLDEGGSLLIALGEEGERG 51
ELL L I + P E+ T ++ L T + G L++ G E G
Sbjct: 44 VGELLAKQDLVILSDYPAERMTAQAIDQLVTMVKAGCGLVMLGGWESYHG 93
>3rgc_A Possible periplasmic protein; ppiase, chaperone; 2.30A
{Campylobacter jejuni}
Length = 252
Score = 27.5 bits (61), Expect = 4.5
Identities = 18/74 (24%), Positives = 27/74 (36%)
Query: 161 VVLGSAALFSDQYLEREENDKMRQIILSFLLTDDINLNQIDADDADVTDYTLVPEIRYTA 220
VV D + R L L+ + + ++Q+ V D L I
Sbjct: 6 VVDKEPITTYDIDQTMKALKIDRNKALGVLINEKMEISQMKQLGIVVNDLELDDAINKML 65
Query: 221 AQLKSTLMEFQEVL 234
AQ K+TL F+ L
Sbjct: 66 AQNKTTLNAFKANL 79
>2z4i_A Copper homeostasis protein CUTF; outer memblane lipoprotein, beta
barrel, OB-fold, 3D domain swapping, signaling protein
activator; HET: P6G; 2.60A {Escherichia coli} PDB:
2z4h_A*
Length = 233
Score = 27.0 bits (59), Expect = 5.2
Identities = 16/68 (23%), Positives = 24/68 (35%), Gaps = 1/68 (1%)
Query: 20 EQFTITELNSLKTYLDEGGSLLIALGEEGERGSSTNINFLLEQYGVSVNSDCVVRCHFYK 79
++ +T+ K+Y G L L EG S N+ LE S+ + Y
Sbjct: 76 DKLVLTDSKGEKSYYRAKGDALEMLDREGNPIES-QFNYTLEAAQSSLPMTPMTLRGMYF 134
Query: 80 YFHPKECF 87
Y F
Sbjct: 135 YMADAATF 142
>3mdp_A Cyclic nucleotide-binding domain (CNMP-BD) protei; structural
genomics, joint center for structural genomics; HET:
MSE; 1.90A {Geobacter metallireducens}
Length = 142
Score = 26.1 bits (58), Expect = 8.5
Identities = 11/50 (22%), Positives = 21/50 (42%), Gaps = 2/50 (4%)
Query: 1 MITPELLRAASLFICTGPREQFTITELNSLKTYLDEGGSLLIALGEEGER 50
MI+PE LR F + I ++ K++ GS++ + +
Sbjct: 2 MISPERLRVYRFFASLTDEQLKDIALISEEKSF--PTGSVIFKENSKADN 49
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
0.320 0.137 0.398
Gapped
Lambda K H
0.267 0.0431 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,922,813
Number of extensions: 229117
Number of successful extensions: 403
Number of sequences better than 10.0: 1
Number of HSP's gapped: 403
Number of HSP's successfully gapped: 10
Length of query: 259
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 167
Effective length of database: 4,133,061
Effective search space: 690221187
Effective search space used: 690221187
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 (21.8 bits)
S2: 56 (26.1 bits)