RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2388
(159 letters)
>1nmo_A Hypothetical protein YBGI; toroidal structure, structure 2 project,
S2F, structural genomics, unknown function; 2.20A
{Escherichia coli} SCOP: c.135.1.1 PDB: 1nmp_A
Length = 247
Score = 156 bits (397), Expect = 7e-49
Identities = 61/154 (39%), Positives = 88/154 (57%), Gaps = 11/154 (7%)
Query: 2 NADAILVHHGYFWKGENSNIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKI 61
ADA++VHHGYFWKGE+ I G+K+ RL+ L+ N INLY +HLPLD HP+LGNNAQLA +
Sbjct: 56 GADAVIVHHGYFWKGESPVIRGMKRNRLKTLLANDINLYGWHLPLDAHPELGNNAQLAAL 115
Query: 62 LNFSCTRRFSKNNIGWIGKIINLKRYNFKKIITIKDLFHHITRKIGKKPI-VIGDLNKKI 120
L + + G+ + +L I ++G+KP+ + +
Sbjct: 116 LGITVMGEI--EPLVPWGE--------LTMPVPGLELASWIEARLGRKPLWCGDTGPEVV 165
Query: 121 YEIGWCTGAAQNLLTDAINEGVTAYISGEISEST 154
+ WCTG Q+ + A GV A+I+GE+SE T
Sbjct: 166 QRVAWCTGGGQSFIDSAARFGVDAFITGEVSEQT 199
>2yyb_A Hypothetical protein TTHA1606; structural genomics, unknown
function; 2.60A {Thermus thermophilus}
Length = 242
Score = 148 bits (376), Expect = 1e-45
Identities = 44/153 (28%), Positives = 67/153 (43%), Gaps = 15/153 (9%)
Query: 2 NADAILVHHGYFWKGENSNIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKI 61
D ++VHHG FW IVG K+RLE L INLYA HLPLD H ++GNN LA+
Sbjct: 57 EVDFLIVHHGLFWGKPFP-IVGHHKRRLETLFQGGINLYAAHLPLDAHEEVGNNFVLARE 115
Query: 62 LNFSCTRRFSKNNIGWIGKIINLKRYNFKKIITIKDLFHHITRKIGKKPIVIGDLNKKIY 121
L + +G G+ F + + + + + G +P+V +
Sbjct: 116 LGLVDLTPWD---VGVKGR--------FPQPTPLLQVADRLGQLTGMQPLVHQGGLDHVE 164
Query: 122 EIGWCTGAAQNLLTDAINEGVTAYISGEISEST 154
+ +G+ LL +++GE S
Sbjct: 165 TVILVSGSGTGLLPKV---DADLFVTGEPKHSV 194
>2fyw_A Conserved hypothetical protein; structural genomics, PSI, midwest
CENT structural genomics, MCSG, protein structure
initiative; 2.40A {Streptococcus pneumoniae} SCOP:
c.135.1.1
Length = 267
Score = 91.2 bits (227), Expect = 3e-23
Identities = 35/154 (22%), Positives = 64/154 (41%), Gaps = 6/154 (3%)
Query: 1 MNADAILVHHGYFWKGENS-NIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLA 59
D I+V H ++ + + LI + I +Y H +D+ G N
Sbjct: 58 KGVDLIIVKHAPIFRPIKDLLASRPQNQIYIDLIKHDIAVYVSHTNIDIVEN-GLNDWFC 116
Query: 60 KILNFSCTRRFSKNNIGW-IGKIINLKRYNFKKIIT-IKDLFHHITRKIGKKPIVIGDLN 117
++L T + IG+I N++ F ++ +K +F + ++ DL
Sbjct: 117 QMLGIEETTYLQETGPERGIGRIGNIQPQTFWELAQQVKQVFDLDSLRMVHY--QEDDLQ 174
Query: 118 KKIYEIGWCTGAAQNLLTDAINEGVTAYISGEIS 151
K I + C G+ Q+ DA+ +G YI+G+I
Sbjct: 175 KPISRVAICGGSGQSFYKDALAKGADVYITGDIY 208
>2nyd_A UPF0135 protein SA1388; hypothetical protein SA1388,
selenomethionine SAD, unknown F; 2.00A {Staphylococcus
aureus subsp} PDB: 3lnl_A*
Length = 370
Score = 52.7 bits (126), Expect = 5e-09
Identities = 24/156 (15%), Positives = 49/156 (31%), Gaps = 6/156 (3%)
Query: 1 MNADAILVHHGYFWKGENSNIV----GIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNA 56
+ F++ E + I ++ +D + +
Sbjct: 157 NGLAQEGNYEYCFFESEGRGQFKPVGEANPTIGQIDKIEDVDEVKIEFMIDAY-QKSRAE 215
Query: 57 QLAKILNFSCTRRFSKNNIGWIGKIINLKRYNFKKIITIKDLFHHITRKIGKKPI-VIGD 115
QL K + T F I +T++D I K+ + +G+
Sbjct: 216 QLIKQYHPYETPVFDFIEIKQTSLYGLGVMAEVDNQMTLEDFAADIKSKLNIPSVRFVGE 275
Query: 116 LNKKIYEIGWCTGAAQNLLTDAINEGVTAYISGEIS 151
N+KI I G+ A+ +G +++G+I
Sbjct: 276 SNQKIKRIAIIGGSGIGYEYQAVQQGADVFVTGDIK 311
Score = 41.9 bits (98), Expect = 3e-05
Identities = 21/77 (27%), Positives = 33/77 (42%), Gaps = 1/77 (1%)
Query: 1 MNADAILVHHGYFWKGENSNIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAK 60
+ I+ HH +KG S + +LI + INL A H LD++P G N LAK
Sbjct: 60 KGYNTIISHHPLIFKGVTSLKANGYGLIIRKLIQHDINLIAMHTNLDVNPY-GVNMMLAK 118
Query: 61 ILNFSCTRRFSKNNIGW 77
++ + +
Sbjct: 119 VMGLKNISIINNQQDVY 135
>2gx8_A NIF3-related protein; structural genomics, unknown function,
protein structure initiative, midwest center for
structural genomics, MCSG; HET: EPE; 2.20A {Bacillus
cereus} SCOP: c.135.1.1
Length = 397
Score = 49.3 bits (117), Expect = 9e-08
Identities = 25/140 (17%), Positives = 53/140 (37%), Gaps = 6/140 (4%)
Query: 13 FWKGENSNIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLAKILNFSCTRRFSK 72
F E +N + +LE++ +I K A + + + +K
Sbjct: 204 FVPQEGTNPYIGETGQLERVEEVRIETIIPASLQRKVIKAMVTAHPYEEVAYDVYPLDNK 263
Query: 73 NNIGWIGKIINLKRYNFKKIITIKDLFHHITRKIGKKPI-VIGDLNKKIYEIGWCTGAAQ 131
+GKI L+ +T+ H+ + + K V+G L+ K+ ++ G
Sbjct: 264 GETLGLGKIGYLQEE-----MTLGQFAEHVKQSLDVKGARVVGKLDDKVRKVAVLGGDGN 318
Query: 132 NLLTDAINEGVTAYISGEIS 151
+ A +G Y++G++
Sbjct: 319 KYINQAKFKGADVYVTGDMY 338
Score = 38.9 bits (90), Expect = 3e-04
Identities = 20/90 (22%), Positives = 36/90 (40%), Gaps = 2/90 (2%)
Query: 1 MNADAILVHHGYFWKGENS-NIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQLA 59
+ A+ I+ HH + + + K +E+ I N I +YA H +D+ G N LA
Sbjct: 84 LGANVIIAHHPLIFNPLKAIHTDKAYGKIIEKCIKNDIAIYAAHTNVDVAKG-GVNDLLA 142
Query: 60 KILNFSCTRRFSKNNIGWIGKIINLKRYNF 89
+ L T + + K++
Sbjct: 143 EALGLQNTEVLAPTYAEEMKKVVVFVPVTH 172
>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 = 43.0 bits (100), Expect = 6e-06
Identities = 10/42 (23%), Positives = 15/42 (35%), Gaps = 13/42 (30%)
Query: 17 ENSNIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLGNNAQL 58
E + K+L+ + LYA D P L A +
Sbjct: 18 EKQAL-----KKLQ----ASLKLYA---D-DSAPALAIKATM 46
>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 = 41.8 bits (97), Expect = 4e-05
Identities = 25/142 (17%), Positives = 51/142 (35%), Gaps = 28/142 (19%)
Query: 13 FWKGENSNIVGIKKKRLEQ--LIINKINLYAYHLP---LDMHPKLGNNAQL-AKILN-FS 65
W + V + +L + L+ + +P L++ KL N L I++ ++
Sbjct: 395 IWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYN 454
Query: 66 CTRRFSKNNIGWIGKIINLKRYNFKKIITIKDLFHHI-----TRKIGKKPIVIGDLN--- 117
+ F +++ L +Y + I HH+ ++ +V D
Sbjct: 455 IPKTFDSDDLI----PPYLDQYFYSHIG------HHLKNIEHPERMTLFRMVFLDFRFLE 504
Query: 118 KKIYEIG--W-CTGAAQNLLTD 136
+KI W +G+ N L
Sbjct: 505 QKIRHDSTAWNASGSILNTLQQ 526
Score = 29.8 bits (66), Expect = 0.43
Identities = 17/86 (19%), Positives = 28/86 (32%), Gaps = 19/86 (22%)
Query: 33 IINKIN-LYAYHLPLDMHPKLGNNAQ----LAKILNFSCT---RRFSKNN---IGWIGKI 81
+ + ++ H+ LD H + L K L+ R N + I +
Sbjct: 277 VTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAES 336
Query: 82 I--------NLKRYNFKKIITIKDLF 99
I N K N K+ TI +
Sbjct: 337 IRDGLATWDNWKHVNCDKLTTIIESS 362
>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 = 29.6 bits (66), Expect = 0.48
Identities = 25/160 (15%), Positives = 50/160 (31%), Gaps = 57/160 (35%)
Query: 20 NIVGIKKKRLEQLIINKINLYAYHLPLDMHPKLG--NNAQLAKILNFSCT---------- 67
+I + +++++ +NK N HLP ++ N A+ N +
Sbjct: 340 SISNLTQEQVQDY-VNKTNS---HLPAGKQVEISLVNGAK-----NLVVSGPPQSLYGLN 390
Query: 68 ---RRFSKNNIGWIGKIINLKRYNFKKIITIKDL-----FH---------HITRKIGKKP 110
R+ + +I +R K + + L FH I + + K
Sbjct: 391 LTLRKAKAPSGLDQSRIPFSER---KLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNN 447
Query: 111 IVI--GDLNKKIYEIGWCTGAAQNL----------LTDAI 138
+ D+ +Y T +L + D I
Sbjct: 448 VSFNAKDIQIPVY----DTFDGSDLRVLSGSISERIVDCI 483
>3k6j_A Protein F01G10.3, confirmed by transcript evidenc; rossmann fold,
oxidoreductase; 2.20A {Caenorhabditis elegans}
Length = 460
Score = 26.5 bits (59), Expect = 4.4
Identities = 4/14 (28%), Positives = 8/14 (57%)
Query: 102 ITRKIGKKPIVIGD 115
I K P+++G+
Sbjct: 218 ACESIKKLPVLVGN 231
>2wtb_A MFP2, fatty acid multifunctional protein (ATMFP2); oxidoreductase,
peroxisomes, beta-oxidation, fatty acid oxidation; 2.50A
{Arabidopsis thaliana}
Length = 725
Score = 26.5 bits (59), Expect = 4.9
Identities = 9/22 (40%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 94 TIKDLFHHITRKIGKKPIVIGD 115
I DL + +KI K P+V+G+
Sbjct: 472 VIVDLLD-VGKKIKKTPVVVGN 492
>3zwc_A Peroxisomal bifunctional enzyme; beta oxidation pathway,
oxidoreductase, lipid metabolism, LY isomerase,
peroxisome, fatty acid metabolism; HET: NAD HSC; 2.30A
{Rattus norvegicus} PDB: 3zw9_A* 3zw8_A* 3zwa_A* 3zwb_A*
2x58_A*
Length = 742
Score = 26.5 bits (59), Expect = 5.4
Identities = 8/22 (36%), Positives = 15/22 (68%), Gaps = 1/22 (4%)
Query: 94 TIKDLFHHITRKIGKKPIVIGD 115
TI + +++KIGK +V+G+
Sbjct: 474 TIATVMS-LSKKIGKIGVVVGN 494
>1zcj_A Peroxisomal bifunctional enzyme; peroxisomal multifunctional enzyme
type 1, L-bifunction enzyme, MFE-1, fatty acid beta
oxidation; 1.90A {Rattus norvegicus}
Length = 463
Score = 26.1 bits (58), Expect = 5.6
Identities = 6/15 (40%), Positives = 12/15 (80%)
Query: 101 HITRKIGKKPIVIGD 115
+++KIGK +V+G+
Sbjct: 201 SLSKKIGKIGVVVGN 215
>1wdk_A Fatty oxidation complex alpha subunit; alpha2BETA2 heterotetrameric
complex, lyase, oxidoreductase/transferase complex,
lyase; HET: ACO NAD N8E; 2.50A {Pseudomonas fragi} SCOP:
a.100.1.3 a.100.1.3 c.2.1.6 c.14.1.3 PDB: 1wdl_A*
1wdm_A* 2d3t_A*
Length = 715
Score = 26.4 bits (59), Expect = 5.8
Identities = 7/15 (46%), Positives = 10/15 (66%)
Query: 101 HITRKIGKKPIVIGD 115
+K+GK PIV+ D
Sbjct: 480 AYAKKMGKNPIVVND 494
>3gg9_A D-3-phosphoglycerate dehydrogenase oxidoreductase; structural
genomics, PSI-2, P structure initiative; 1.90A
{Ralstonia solanacearum}
Length = 352
Score = 25.7 bits (57), Expect = 9.0
Identities = 3/28 (10%), Positives = 10/28 (35%)
Query: 123 IGWCTGAAQNLLTDAINEGVTAYISGEI 150
IG+ + + + + + G +
Sbjct: 301 IGYVERESYEMYFGIAFQNILDILQGNV 328
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
0.321 0.139 0.418
Gapped
Lambda K H
0.267 0.0748 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,546,011
Number of extensions: 150278
Number of successful extensions: 326
Number of sequences better than 10.0: 1
Number of HSP's gapped: 318
Number of HSP's successfully gapped: 26
Length of query: 159
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 73
Effective length of database: 4,300,587
Effective search space: 313942851
Effective search space used: 313942851
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: 53 (24.2 bits)