RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12536
(205 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 = 40.4 bits (94), Expect = 2e-04
Identities = 33/176 (18%), Positives = 57/176 (32%), Gaps = 58/176 (32%)
Query: 59 DTTVGQVVNLLSNDVNRFDTACIFL-----HHLINRLLGAKKMYLGKKTSELR-----LK 108
+ VGQ +L+ + F+ +L H L +LL L K ++
Sbjct: 74 PSKVGQFDQVLNLCLTEFENC--YLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARI 131
Query: 109 TALRTDERVR---LMNEIISGIQVIKMYA-------WERSFASMVRNARKKEIQQIRGST 158
A R ++ L + G ++ A + F +E++ + T
Sbjct: 132 MAKRPFDKKSNSALFRAVGEG--NAQLVAIFGGQGNTDDYF---------EELRDL-YQT 179
Query: 159 YIKGVLLSFIIFH-------------TRSIFIK--NIKAKWL------PDQPDYTL 193
Y ++ I F +F + NI WL PD+ DY L
Sbjct: 180 Y-HVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILE-WLENPSNTPDK-DYLL 232
>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 = 37.1 bits (85), Expect = 0.003
Identities = 24/201 (11%), Positives = 54/201 (26%), Gaps = 54/201 (26%)
Query: 11 ALVALIVVDLLIDHQYDLAVQALGMEL--RVAGCSLIYRKALRLSKTALGDTTVGQVVNL 68
L A + +DH L + C + L + +
Sbjct: 280 FLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRP---QDLPREVLTTNPRRLSIIAES 336
Query: 69 LSNDVNRFDTACIFLHHLINRLLGAKKMYLGKKTSELRLKTALRTDERVRLMNEI----- 123
+ + + +D + H ++L E L L E ++ + +
Sbjct: 337 IRDGLATWDN---WKHVNCDKL---------TTIIESSLN-VLEPAEYRKMFDRLSVFPP 383
Query: 124 ---ISGIQVIKMYAWERSFASMVRNARKKEIQQIRGSTYIKGVLLSFIIFHTRSIFIKNI 180
I ++ + W + K ++ + H S+ K
Sbjct: 384 SAHIP-TILLSLI-WF--------DVIKSDVMVVVNK------------LHKYSLVEKQ- 420
Query: 181 KAKWLPDQPDYTLNDITLDVK 201
P + ++ I L++K
Sbjct: 421 -----PKESTISIPSIYLELK 436
>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC
transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo
sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A
1ckz_A
Length = 229
Score = 30.2 bits (69), Expect = 0.33
Identities = 6/28 (21%), Positives = 12/28 (42%), Gaps = 1/28 (3%)
Query: 174 SIFIKNIKAKWLPDQPDYTLNDITLDVK 201
+ ++N+ A W L DI ++
Sbjct: 6 EVVMENVTAFWEEGGTP-VLKDINFKIE 32
>2cbz_A Multidrug resistance-associated protein 1; ABC proteins,
MRP1/ABCC1, nucleotide-binding domain, ATP- binding,
hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}
Length = 237
Score = 29.4 bits (67), Expect = 0.66
Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 174 SIFIKNIKAKWLPDQPDYTLNDITLDVK 201
SI ++N W P TLN IT +
Sbjct: 3 SITVRNATFTWARSDPP-TLNGITFSIP 29
>1i8d_A Riboflavin synthase; riboflavin biosynthesis, antimicrobial target,
structure-based design, transferase; 2.00A {Escherichia
coli} SCOP: b.43.4.3 b.43.4.3 PDB: 1hze_A* 1i18_A*
1pkv_A*
Length = 213
Score = 29.1 bits (66), Expect = 0.71
Identities = 12/53 (22%), Positives = 23/53 (43%), Gaps = 6/53 (11%)
Query: 52 LSKTALGDTTVGQVVNLLSNDVNRFDTACIFLHHLINRLLGAKKMYLGKKTSE 104
L +T LG +G VN+ D + + R+L A++ + + +E
Sbjct: 166 LERTTLGKKKLGARVNI------EIDPQTQAVVDTVERVLAARENAMNQPGTE 212
Score = 27.1 bits (61), Expect = 3.4
Identities = 9/17 (52%), Positives = 10/17 (58%)
Query: 52 LSKTALGDTTVGQVVNL 68
L T LGD VG VN+
Sbjct: 68 LRITNLGDLKVGDWVNV 84
>2yl4_A ATP-binding cassette SUB-family B member 10, mitochondrial;
membrane protein, mitochondrial transport; HET: ACP LMT
CDL 14Y; 2.85A {Homo sapiens} PDB: 4aa3_A*
Length = 595
Score = 27.9 bits (63), Expect = 2.6
Identities = 20/160 (12%), Positives = 45/160 (28%), Gaps = 36/160 (22%)
Query: 43 SLIYRKALRLSKTALGDTTVGQVVNLLSNDVNRF-----DTACIFLHHLIN--------- 88
+ ++ LR T G+++N LS+D + L
Sbjct: 99 TSLFSSILRQEVAFFDKTRTGELINRLSSDTALLGRSVTENLSDGLRAGAQASVGISMMF 158
Query: 89 ----RL----------LGAKKMYLGKKTSELRLKTALRTDERVRLMNEIISGIQVIKMYA 134
L + + G+ +L T + +L E I ++ ++ +
Sbjct: 159 FVSPNLATFVLSVVPPVSIIAVIYGRYLRKLTKVTQDSLAQATQLAEERIGNVRTVRAFG 218
Query: 135 WE----RSFASMVRNARKKEIQQIRGSTYIKGVLLSFIIF 170
E +AS V + + ++ +
Sbjct: 219 KEMTEIEKYASKVDHVMQLARKEAF----ARAGFFGATGL 254
>1kzl_A Riboflavin synthase; biosynthesis of riboflavin, ligand binding,
transferase; HET: CRM; 2.10A {Schizosaccharomyces
pombe} SCOP: b.43.4.3 b.43.4.3
Length = 208
Score = 27.5 bits (62), Expect = 2.9
Identities = 8/17 (47%), Positives = 8/17 (47%)
Query: 52 LSKTALGDTTVGQVVNL 68
L T LG G VNL
Sbjct: 68 LRLTNLGQCKAGDPVNL 84
>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter,
lipid flippase, hydrolase, inner membrane, lipid
transport, membrane; HET: ANP; 3.70A {Salmonella
typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A*
3b5z_A* 3b5w_A
Length = 582
Score = 26.8 bits (60), Expect = 5.8
Identities = 3/40 (7%), Positives = 16/40 (40%), Gaps = 4/40 (10%)
Query: 120 MNEIISGIQVIKMYAWERS----FASMVRNARKKEIQQIR 155
+++ G + + ++ + F + R + ++ +
Sbjct: 207 AEQMLKGHKEVLIFGGQEVETKRFDKVSNKMRLQGMKMVS 246
>3a35_A Lumazine protein, LUMP; luminous bacteria, homologue of
riboflavin synthase, luminescent protein; HET: RBF;
1.42A {Photobacterium kishitanii} PDB: 3a3b_B* 3a3g_A*
Length = 190
Score = 26.3 bits (59), Expect = 6.0
Identities = 6/17 (35%), Positives = 9/17 (52%)
Query: 52 LSKTALGDTTVGQVVNL 68
++ T + VG VNL
Sbjct: 67 INTTTFRELEVGNKVNL 83
>1xne_A Hypothetical protein PF0469; GFT structural genomics, protein
structure initiative, NESG, PFR14, alpha and beta
protein; NMR {Pyrococcus furiosus} SCOP: b.122.1.6
Length = 113
Score = 25.5 bits (56), Expect = 6.4
Identities = 11/57 (19%), Positives = 26/57 (45%), Gaps = 7/57 (12%)
Query: 99 GKKTSELRLKT----ALRTDERVRLMNEIISGIQVIKMYAWERSFASMVRNARKKEI 151
GKK E+R+ ++ +++ + I + + +K Y +F ++R +I
Sbjct: 19 GKKRIEVRVAYPQLKDIKRGDKIIFNDLIPAEVVEVKKYE---TFRQVLREEPIDKI 72
>3ddy_A Lumazine protein, LUMP; luminescent bacteria, lumazine PR
riboflavin synthase, luminescence, luminescent protein;
HET: RBF; 2.50A {Photobacterium leiognathi}
Length = 186
Score = 25.9 bits (58), Expect = 7.0
Identities = 6/17 (35%), Positives = 6/17 (35%)
Query: 52 LSKTALGDTTVGQVVNL 68
L T G VNL
Sbjct: 67 LGTTTFDGLKEGDQVNL 83
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
0.325 0.137 0.398
Gapped
Lambda K H
0.267 0.0712 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,053,913
Number of extensions: 174870
Number of successful extensions: 380
Number of sequences better than 10.0: 1
Number of HSP's gapped: 378
Number of HSP's successfully gapped: 18
Length of query: 205
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 116
Effective length of database: 4,216,824
Effective search space: 489151584
Effective search space used: 489151584
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.0 bits)