RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14698
(206 letters)
>3oii_A Essential for mitotic growth 1; EMG1, scnep1, spout, ribosome
biogenesis, methyltransferase, processing, ribosomal
protein; HET: SAH; 1.85A {Saccharomyces cerevisiae} PDB:
3oij_A* 3oin_A* 2v3j_A 2v3k_A*
Length = 253
Score = 257 bits (658), Expect = 1e-87
Identities = 101/190 (53%), Positives = 132/190 (69%), Gaps = 4/190 (2%)
Query: 20 KNAFELLNCDDHGYLLKKDGREPGSCRPDIVHQCLLMLMDSPLNRAGLLQVYIHTEKNVL 79
+ + LLNCDDH LLKK GR+ RPDI HQCLL L+DSP+N+AG LQVYI T + +L
Sbjct: 63 GDKYVLLNCDDHQGLLKKMGRDISEARPDITHQCLLTLLDSPINKAGKLQVYIQTSRGIL 122
Query: 80 IEVNPQTRIPRTFKRFAGLMVQLLHKFSVRASDSNIKLLKVIKNPITQHLPVGVRKIGTS 139
IEVNP RIPRTFKRF+GLMVQLLHK S+R+ +S KLLKVIKNPIT HLP RK+ S
Sbjct: 123 IEVNPTVRIPRTFKRFSGLMVQLLHKLSIRSVNSEEKLLKVIKNPITDHLPTKCRKVTLS 182
Query: 140 FSSSKLTKP--ADLVPADEPIVIVIGAMAHGQVD--TDYTEGNISISNFPLSAALTCTKL 195
F + + + + DE I + +GAMA G+ + +Y + + +SN+PLSA++ C+K
Sbjct: 183 FDAPVIRVQDYIEKLDDDESICVFVGAMARGKDNFADEYVDEKVGLSNYPLSASVACSKF 242
Query: 196 CSAFEEAWGV 205
C E+AW +
Sbjct: 243 CHGAEDAWNI 252
>3o7b_A Ribosome biogenesis NEP1 RNA methyltransferase; spout, rRNA
processi transferase; HET: TYR SAH; 1.45A {Archaeoglobus
fulgidus}
Length = 244
Score = 229 bits (585), Expect = 1e-76
Identities = 49/187 (26%), Positives = 83/187 (44%), Gaps = 14/187 (7%)
Query: 23 FELLNCDDHGYLLKKDGREPGSCRPDIVHQCLLMLMDSPLNRAGLLQVYIHTEKNVLIEV 82
LL+ H +K RPDIVHQCLL+L+DSPL +VY+HT +I V
Sbjct: 63 KILLDDSKHHTAMKSLEFREKRGRPDIVHQCLLLLLDSPLRD---FEVYVHTLNGEIIWV 119
Query: 83 NPQTRIPRTFKRFAGLMVQLLHKFSVRASDSNIKLLKVIKNPITQHLPVGVRKIGTSFSS 142
N +TR+PR + RF GLM +L + + A D+ L++ + + G +
Sbjct: 120 NRETRLPRNYNRFVGLMEKLFEERRITAGDT--TLIEFKDVGLRDIVR-GRDVLLFRE-K 175
Query: 143 SKLTKPADLVPADEPIVIVIGAMAHGQVDTDYTE-----GNISISNFPLSAALTCTKLCS 197
+ ++L+ D + + IGA HG + +S+ ++ +++
Sbjct: 176 GGRFEFSELL--DGDVAVCIGAFPHGDFFEETLRELGEFKEVSLGTESYTSLYVTSRVLC 233
Query: 198 AFEEAWG 204
+E
Sbjct: 234 EYERVRA 240
>3bbd_A Ribosome biogenesis protein NEP1-like; methyltransferase,
S-adenosyl-methionin adenosyl-homocysteine, rRNA
processing; HET: MSE SAH; 2.15A {Methanocaldococcus
jannaschii} SCOP: c.116.1.6 PDB: 3bbe_A 3bbh_A*
Length = 205
Score = 222 bits (566), Expect = 3e-74
Identities = 53/186 (28%), Positives = 89/186 (47%), Gaps = 14/186 (7%)
Query: 20 KNAFELLNCDDHGYLLKKDGREPGSCRPDIVHQCLLMLMDSPLNRAGLLQVYIHTEKNVL 79
+++L+ + H ++K + RPDI+H LL ++DSP+N L +YIHT + +
Sbjct: 28 VYKYDILDSNYHYKAMEKLKDKEMRGRPDIIHISLLNILDSPINHEKKLNIYIHTYDDKV 87
Query: 80 IEVNPQTRIPRTFKRFAGLMVQLLHKFSVRASDSNIKLLKVIKNPITQHLPVGVRKIGTS 139
+++NP+TR+PR + RF G+M ++L K L+ + N I +KI
Sbjct: 88 LKINPETRLPRNYFRFLGVMEKVLKGERNHLIKMEEKTLEDLLNEI------NAKKIAIM 141
Query: 140 FSSSKLTKPADLVPADEPIVIVIGAMAHGQVDTDYTE-----GNISISNFPLSAALTCTK 194
+ KLT P L E +IG +G++ + + ISI N L A C
Sbjct: 142 TKTGKLTHPKLL---KEYDTFIIGGFPYGKLKINKEKVFGDIKEISIYNKGLMAWTVCGI 198
Query: 195 LCSAFE 200
+C +
Sbjct: 199 ICYSLS 204
>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 = 40.2 bits (93), Expect = 3e-04
Identities = 36/215 (16%), Positives = 62/215 (28%), Gaps = 67/215 (31%)
Query: 1 MSG-GHYK------VAQNYFIFNFQTKNAFELL-----NCDDHGYLLKK----------- 37
+ G G K V +Y Q K F++ NC+ +L+
Sbjct: 158 VLGSG--KTWVALDVCLSY---KVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPN 212
Query: 38 -----DGREPGSCRPDIVHQCLLMLMDSPLNRAGLLQVYIHTEKNVLIEVNPQTRIPRTF 92
D R + L L+ S LL VL+ V + + +
Sbjct: 213 WTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL---------VLLNV----QNAKAW 259
Query: 93 KRFAGLMVQLLHKFSVRASDSNIKLLKVIKNPITQHLPVGVRKIG-TSFSSSKL------ 145
F L ++L + + + T H+ + + T L
Sbjct: 260 NAF-NLSCKIL----LTTRFKQV--TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD 312
Query: 146 TKPADLVPADE----PIVI-VIGAMAHGQVDT-DY 174
+P DL P + P + +I + T D
Sbjct: 313 CRPQDL-PREVLTTNPRRLSIIAESIRDGLATWDN 346
Score = 26.4 bits (57), Expect = 9.8
Identities = 21/119 (17%), Positives = 40/119 (33%), Gaps = 24/119 (20%)
Query: 49 IVHQCLLMLMDSPLNRAGLLQVYIHTEKNVLIEVNPQTRIPR----TFKRFAGLMVQLLH 104
I+ L +L + R ++ + + I P + K ++V LH
Sbjct: 358 IIESSLNVL-EPAEYRKMFDRLSVF-PPSAHI---PTILLSLIWFDVIKSDVMVVVNKLH 412
Query: 105 KFSVRASDSN----------IKLLKVIKNPITQHLPVGVRKIGTSFSSSKLTKPADLVP 153
K+S+ ++L ++N H R I ++ K DL+P
Sbjct: 413 KYSLVEKQPKESTISIPSIYLELKVKLENEYALH-----RSIVDHYNIPKTFDSDDLIP 466
>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 = 36.2 bits (83), Expect = 0.006
Identities = 28/133 (21%), Positives = 41/133 (30%), Gaps = 29/133 (21%)
Query: 44 SCRPDIVHQCL--------LMLMDSPLNRAGLLQVYIHTEKNVLIEVNPQTRI-----PR 90
S P I+ L ML S L + +Q Y+ + N + Q I +
Sbjct: 318 SLPPSILEDSLENNEGVPSPMLSISNLTQE-QVQDYV-NKTNSHLPAGKQVEISLVNGAK 375
Query: 91 TF------KRFAGLMVQLLHKFSVRASD--SNIKLLKVIKNPITQHLPVGVRKIGTSFSS 142
+ GL L K + S I + + LPV F S
Sbjct: 376 NLVVSGPPQSLYGL-NLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASP-----FHS 429
Query: 143 SKLTKPADLVPAD 155
L +DL+ D
Sbjct: 430 HLLVPASDLINKD 442
>3m0c_C LDL receptor, low-density lipoprotein receptor; protein complex,
beta propeller, cholesterol clearance, PCSK
autocatalytic cleavage; 7.01A {Homo sapiens}
Length = 791
Score = 30.6 bits (68), Expect = 0.41
Identities = 14/64 (21%), Positives = 25/64 (39%), Gaps = 6/64 (9%)
Query: 28 CDDHGYLLKKDGREPGSCRPDIVHQCLLMLMDSPLNRAGLLQVYIHTEKNVLIEVNPQTR 87
C D G LL +D R SC + + + ++ R + + T+ V +R
Sbjct: 695 CPD-GMLLARDMR---SCLTE--AEAAVATQETSTVRLKVSSTAVRTQHTTTRPVPDTSR 748
Query: 88 IPRT 91
+P
Sbjct: 749 LPGA 752
>2bb0_A Imidazolonepropionase; TIM barrel, hydrolase; 2.00A {Bacillus
subtilis} SCOP: b.92.1.10 c.1.9.17 PDB: 2g3f_A
Length = 421
Score = 27.4 bits (61), Expect = 3.7
Identities = 24/102 (23%), Positives = 35/102 (34%), Gaps = 20/102 (19%)
Query: 108 VRASDSNIKLLKVIKNPITQHLPVGVRKIGTSFS--SSKLTKPADLVPADEPIVIVIGAM 165
V SD IK L I LP GT+F S + ++ + ++
Sbjct: 274 VGTSDEGIKKLAE-AGTIAVLLP------GTTFYLGKSTYARARAMIDEGVCV-----SL 321
Query: 166 AHGQVDTDYTEGNISISNFPLSAALTCTKLCSAFEEA-WGVT 206
A TD+ G+ N L ++ L EE VT
Sbjct: 322 A-----TDFNPGSSPTENIQLIMSIAALHLKMTAEEIWHAVT 358
>3dhf_A Nicotinamide phosphoribosyltransferase; NMPRTASE, NAMPRTASE,
visfatin, beryllium fluoride, nicotinamide
D-ribonucleotide, pyrophosphate; HET: NMN; 1.80A {Homo
sapiens} PDB: 3dgr_A* 3dhd_A* 3dkj_A* 3dkl_A* 2gvj_A*
2gvg_A* 2e5b_A 2e5c_A* 2e5d_A 2h3d_A* 2gvl_A 2h3b_A
2g95_A 2g96_A* 2g97_A* 3g8e_A*
Length = 484
Score = 27.4 bits (60), Expect = 3.9
Identities = 8/52 (15%), Positives = 19/52 (36%), Gaps = 3/52 (5%)
Query: 151 LVPADEPIVIVIGAMAHGQVDTDYTEGNISISNFP-LSA--ALTCTKLCSAF 199
++P + V T++ E + S +P A + K+ + +
Sbjct: 124 VIPRGNVLFTVENTDPECYWLTNWIETILVQSWYPITVATNSREQKKILAKY 175
>2puz_A Imidazolonepropionase; NYSGXRC, PSI-2, N-formimino-L- glutamate,
product-bound, structural genomics, protein STRU
initiative; HET: NIG; 1.83A {Agrobacterium tumefaciens
str} SCOP: b.92.1.10 c.1.9.17 PDB: 2gok_A
Length = 419
Score = 26.4 bits (58), Expect = 6.8
Identities = 21/120 (17%), Positives = 34/120 (28%), Gaps = 24/120 (20%)
Query: 90 RTFKRFAGLMVQLLHKFSVRASDSNIKLLKVIKNPITQHLPVGVRKIGTSFS--SSKLTK 147
+ L L ++ K L + LP G ++ +L
Sbjct: 265 ELAASYNALSADHLEY----LDETGAKALAK-AGTVAVLLP------GAFYALREKQLPP 313
Query: 148 PADLVPADEPIVIVIGAMAHGQVDTDYTEGNISISNFPLSAALTCTKLCSAFEEA-WGVT 206
L A I A+A TD G +++ L+ + T EE T
Sbjct: 314 VQALRDAGAEI-----ALA-----TDCNPGTSPLTSLLLTMNMGATLFRMTVEECLTATT 363
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 0.137 0.410
Gapped
Lambda K H
0.267 0.0558 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,097,063
Number of extensions: 172950
Number of successful extensions: 295
Number of sequences better than 10.0: 1
Number of HSP's gapped: 286
Number of HSP's successfully gapped: 12
Length of query: 206
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 117
Effective length of database: 4,216,824
Effective search space: 493368408
Effective search space used: 493368408
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: 55 (25.3 bits)