RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 037166
(239 letters)
>1o9p_A Malonamidase E2; malonate; 1.8A {Bradyrhizobium japonicum} SCOP:
c.117.1.1 PDB: 1o9o_A 1obl_A 1och_A 1obk_A 1obi_A
1o9q_A* 1obj_A 1o9n_A 1ock_A 1ocl_A 1ocm_A
Length = 414
Score = 180 bits (458), Expect = 9e-55
Identities = 56/152 (36%), Positives = 71/152 (46%), Gaps = 8/152 (5%)
Query: 16 PLSGLTFAIKDIFDVDGHVTGFGNPDWARTHSAATSTAPAVLAVLSGGATSIGKTIMDEM 75
PL G+ IKDI D T G+ + + + +L GAT IGKT
Sbjct: 53 PLRGIAVGIKDIIDTANMPTEMGSEIYRGWQPRSDAPVVMMLK--RAGATIIGKTTTTAF 110
Query: 76 AYSINGENKHYGTPTNPWAPDRVPGGSSSGSAVAVGAKLVDFSLGTDTGGSVRVPASYCG 135
A NP PGG+SSGSA AVGA ++ +LGT TGGSV PA+YCG
Sbjct: 111 ASR------DPTATLNPHNTGHSPGGASSGSAAAVGAGMIPLALGTQTGGSVIRPAAYCG 164
Query: 136 IFGFRPSHGAVSTAGVIPMAQSFDTVGWFAWD 167
+PS + T GV + + DTVG F
Sbjct: 165 TAAIKPSFRMLPTVGVKCYSWALDTVGLFGAR 196
>2dc0_A Probable amidase; structural genomics, NPPSFA, national project on
protein structural and functional analyses; 2.00A
{Thermus thermophilus}
Length = 434
Score = 167 bits (426), Expect = 7e-50
Identities = 63/155 (40%), Positives = 78/155 (50%), Gaps = 9/155 (5%)
Query: 16 PLSGLTFAIKDIFDVDGHVTGFG---NPDWARTHSAATSTAPAVLAVLSGGATSIGKTIM 72
PL GL +KD+F V G T G + A L GA KT M
Sbjct: 64 PLHGLPLTVKDLFPVKGMPTRAGTKAPLPPL----PEEARAVRRLR--EAGALLFAKTNM 117
Query: 73 DEMAYSINGENKHYGTPTNPWAPDRVPGGSSSGSAVAVGAKLVDFSLGTDTGGSVRVPAS 132
E+A I GEN G N P R GGSS GSAVAV + SLGTDTGGS+R+PA
Sbjct: 118 HEIALGITGENPWTGPVRNAVDPSRQAGGSSGGSAVAVALGIGLASLGTDTGGSIRIPAG 177
Query: 133 YCGIFGFRPSHGAVSTAGVIPMAQSFDTVGWFAWD 167
+ G+ GF+PS+G VS G +P+++S D G
Sbjct: 178 FNGVVGFKPSYGRVSLEGALPLSRSTDHAGPLTRS 212
>3a1k_A Amidase; AS family enzyme, hydrolase; 2.17A {Rhodococcus SP} PDB:
3a1i_A
Length = 521
Score = 162 bits (412), Expect = 3e-47
Identities = 54/158 (34%), Positives = 76/158 (48%), Gaps = 18/158 (11%)
Query: 16 PLSGLTFAIKDIFDVDGHVT--------GFGNPDWARTHSAATSTAPAVLAVLSGGATSI 67
L+G AIKD V G GF P A V +L+ GAT
Sbjct: 87 VLTGRRVAIKDNVTVAGVPMMNGSRTVEGF-TPSR---------DATVVTRLLAAGATVA 136
Query: 68 GKTIMDEMAYSINGENKHYGTPTNPWAPDRVPGGSSSGSAVAVGAKLVDFSLGTDTGGSV 127
GK + +++ +S + G NPW R GGSS GSA V VDF++G D GGS+
Sbjct: 137 GKAVCEDLCFSGSSFTPASGPVRNPWDRQREAGGSSGGSAALVANGDVDFAIGGDQGGSI 196
Query: 128 RVPASYCGIFGFRPSHGAVSTAGVIPMAQSFDTVGWFA 165
R+PA++CG+ G +P+ G V G P+ ++ D +G
Sbjct: 197 RIPAAFCGVVGHKPTFGLVPYTGAFPIERTIDHLGPIT 234
>3a2q_A 6-aminohexanoate-cyclic-dimer hydrolase; alpha/beta fold, nylon
degradation; 1.80A {Arthrobacter SP} PDB: 3a2p_A
Length = 493
Score = 158 bits (402), Expect = 5e-46
Identities = 45/146 (30%), Positives = 69/146 (47%), Gaps = 1/146 (0%)
Query: 16 PLSGLTFAIKDIFDV-DGHVTGFGNPDWARTHSAATSTAPAVLAVLSGGATSIGKTIMDE 74
P +G+ + +KD+ V G + + A A V + + G +GKT E
Sbjct: 63 PFAGVPYLLKDLTVVSQGDINTSSIKGMKESGYRADHDAYFVQRMRAAGFVLLGKTNTPE 122
Query: 75 MAYSINGENKHYGTPTNPWAPDRVPGGSSSGSAVAVGAKLVDFSLGTDTGGSVRVPASYC 134
M + E + +G NPW R GGSS GS AV A L + G D G+VR+PAS C
Sbjct: 123 MGNQVTTEPEAWGATRNPWNLGRSVGGSSGGSGAAVAAALSPVAHGNDAAGAVRIPASVC 182
Query: 135 GIFGFRPSHGAVSTAGVIPMAQSFDT 160
G+ G +P+ G +S ++ + +
Sbjct: 183 GVVGLKPTRGRISPGPLVTDSDNVAG 208
>1m22_A Peptide amidase, PAM; eleven-stranded beta sheet, covered double
layers of alpha helices on TOP and bottom, hydrolase;
HET: EPE; 1.40A {Stenotrophomonas maltophilia} SCOP:
c.117.1.1 PDB: 1m21_A*
Length = 503
Score = 150 bits (382), Expect = 5e-43
Identities = 58/163 (35%), Positives = 78/163 (47%), Gaps = 24/163 (14%)
Query: 16 PLSGLTFAIKDIFDVDGHVT--------GFGNPDWARTHSAATSTAPAVLAVLSGGATSI 67
PL G+ +KD + T GF D A V + GA +
Sbjct: 77 PLHGIPLLLKDNINAAPMATSAGSLALQGFRPDD-----------AYLVRRLRDAGAVVL 125
Query: 68 GKTIMDEMA-----YSINGENKHYGTPTNPWAPDRVPGGSSSGSAVAVGAKLVDFSLGTD 122
GKT + E A SI+G + G NP+ P GSSSGSAVAV A L ++GT+
Sbjct: 126 GKTNLSEWANFRGNDSISGWSARGGQTRNPYRISHSPCGSSSGSAVAVAANLASVAIGTE 185
Query: 123 TGGSVRVPASYCGIFGFRPSHGAVSTAGVIPMAQSFDTVGWFA 165
T GS+ PA+ G+ G +P+ G VS G+IP++ S DT G A
Sbjct: 186 TDGSIVCPAAINGVVGLKPTVGLVSRDGIIPISFSQDTAGPMA 228
>3kfu_E Glutamyl-tRNA(Gln) amidotransferase subunit A; ASPRS, gatcab,
ATP-binding, aminoacyl-tRNA synthetase, ligas
nucleotide-binding, protein biosynthesis, ligase-RNA
comple; HET: H2U 5MU PSU; 3.00A {Thermus thermophilus}
Length = 471
Score = 144 bits (367), Expect = 5e-41
Identities = 66/162 (40%), Positives = 88/162 (54%), Gaps = 18/162 (11%)
Query: 14 QLPLSGLTFAIKDIFDVDGHVT--------GFGNPDWARTHSAATSTAPAVLAVLSGGAT 65
LPL+GL A+KD G T F P +TA A L + GA
Sbjct: 55 GLPLAGLVVAVKDNIATRGLRTTAGSRLLENFVPP--------YEATAVARLK--ALGAL 104
Query: 66 SIGKTIMDEMAYSINGENKHYGTPTNPWAPDRVPGGSSSGSAVAVGAKLVDFSLGTDTGG 125
+GKT +DE + E+ + NP+ PDRVPGGSS GSA A+ A L +LG+DTGG
Sbjct: 105 VLGKTNLDEFGMGSSTEHSAFFPTKNPFDPDRVPGGSSGGSAAALAADLAPLALGSDTGG 164
Query: 126 SVRVPASYCGIFGFRPSHGAVSTAGVIPMAQSFDTVGWFAWD 167
SVR PA++CG++G +P++G VS G+I A S D +G A
Sbjct: 165 SVRQPAAFCGVYGLKPTYGRVSRFGLIAYASSLDQIGPMARS 206
>3ip4_A Glutamyl-tRNA(Gln) amidotransferase subunit A; multi protein
complex, ligase, ATP-binding, nucleotide-bindi protein
biosynthesis; 1.90A {Staphylococcus aureus subsp} PDB:
2df4_A 2dqn_A* 2g5h_A 2g5i_A* 2f2a_A
Length = 485
Score = 144 bits (365), Expect = 1e-40
Identities = 61/160 (38%), Positives = 78/160 (48%), Gaps = 18/160 (11%)
Query: 16 PLSGLTFAIKDIFDVDGHVT--------GFGNPDWARTHSAATSTAPAVLAVLSGGATSI 67
L G+ IKD +G T GF ST L A I
Sbjct: 70 KLFGIPMGIKDNIITNGLETTCASKMLEGFVPI--------YESTVMEKLH--KENAVLI 119
Query: 68 GKTIMDEMAYSINGENKHYGTPTNPWAPDRVPGGSSSGSAVAVGAKLVDFSLGTDTGGSV 127
GK MDE A + E ++ NP+ VPGGSS GSA AV A LV SLG+DTGGS+
Sbjct: 120 GKLNMDEFAMGGSTETSYFKKTVNPFDHKAVPGGSSGGSAAAVAAGLVPLSLGSDTGGSI 179
Query: 128 RVPASYCGIFGFRPSHGAVSTAGVIPMAQSFDTVGWFAWD 167
R PA+YCG+ G +P++G VS G++ A S D +G +
Sbjct: 180 RQPAAYCGVVGMKPTYGRVSRFGLVAFASSLDQIGPLTRN 219
>3h0l_A Glutamyl-tRNA(Gln) amidotransferase subunit A; multi protein
complex, ligase, protein biosynthesis; HET: ADP; 2.30A
{Aquifex aeolicus} PDB: 3h0m_A 3h0r_A*
Length = 478
Score = 144 bits (365), Expect = 1e-40
Identities = 61/160 (38%), Positives = 81/160 (50%), Gaps = 18/160 (11%)
Query: 16 PLSGLTFAIKDIFDVDGHVT--------GFGNPDWARTHSAATSTAPAVLAVLSGGATSI 67
PL G+ A+KD V+G T F P +T L GA +
Sbjct: 63 PLFGIPIAVKDNILVEGEKTTCASKILENFVAP--------YDATVIERLK--KAGALIV 112
Query: 68 GKTIMDEMAYSINGENKHYGTPTNPWAPDRVPGGSSSGSAVAVGAKLVDFSLGTDTGGSV 127
GKT +DE A + E + NPW +RVPGGSS GSA +V SLG+DTGGS+
Sbjct: 113 GKTNLDEFAMGSSTEYSAFFPTKNPWDLERVPGGSSGGSAASVAVLSAPVSLGSDTGGSI 172
Query: 128 RVPASYCGIFGFRPSHGAVSTAGVIPMAQSFDTVGWFAWD 167
R PAS+CG+ G +P++G VS G++ A S D +G F
Sbjct: 173 RQPASFCGVIGIKPTYGRVSRYGLVAFASSLDQIGVFGRR 212
>2gi3_A Glutamyl-tRNA(Gln) amidotransferase subunit A; TM1272, structural
genomics, joint center for structura genomics, JCSG;
HET: MSE MPD; 1.80A {Thermotoga maritima} SCOP:
c.117.1.1 PDB: 3al0_A*
Length = 476
Score = 143 bits (363), Expect = 2e-40
Identities = 56/160 (35%), Positives = 77/160 (48%), Gaps = 18/160 (11%)
Query: 16 PLSGLTFAIKDIFDVDGHVT--------GFGNPDWARTHSAATSTAPAVLAVLSGGATSI 67
G+ AIKD G T + + +T + G +
Sbjct: 58 KFWGIPVAIKDNILTLGMRTTCASRILENYESV--------FDATVVKKMK--EAGFVVV 107
Query: 68 GKTIMDEMAYSINGENKHYGTPTNPWAPDRVPGGSSSGSAVAVGAKLVDFSLGTDTGGSV 127
GK +DE A + E + NPW +RVPGGSS GSA AV A +V +LG+DTGGSV
Sbjct: 108 GKANLDEFAMGSSTERSAFFPTRNPWDLERVPGGSSGGSAAAVSAGMVVAALGSDTGGSV 167
Query: 128 RVPASYCGIFGFRPSHGAVSTAGVIPMAQSFDTVGWFAWD 167
R PAS CG+ G++P++G VS G++ A S D +G
Sbjct: 168 RQPASLCGVVGYKPTYGLVSRYGLVAFASSLDQIGPITKT 207
>3ppm_A Fatty-acid amide hydrolase 1; protein-inhibitor complex, FAAH,
oxazole, oxadiazole, endoca degradation, membrane
protein; HET: JG1 1DO; 1.78A {Rattus norvegicus} PDB:
2wj2_A* 3k7f_A* 3k83_A* 3k84_A* 3lj6_A* 3lj7_A 3oj8_A*
2wj1_A* 3pr0_A* 2wap_A* 1mt5_A* 2vya_A* 3qk5_A* 3qj8_A*
3qj9_A* 3qkv_A*
Length = 573
Score = 144 bits (364), Expect = 4e-40
Identities = 42/146 (28%), Positives = 66/146 (45%), Gaps = 2/146 (1%)
Query: 16 PLSGLTFAIKDIFDVDGHVTGFGNPDWARTHSAATSTAPAVLAVLSGGATSIGKTIMDEM 75
L G+ ++K+ F GH + G + S V + GA T + +
Sbjct: 127 LLYGVPVSLKECFSYKGHDSTLGLSLNE--GMPSESDCVVVQVLKLQGAVPFVHTNVPQS 184
Query: 76 AYSINGENKHYGTPTNPWAPDRVPGGSSSGSAVAVGAKLVDFSLGTDTGGSVRVPASYCG 135
+S + N +G NPW + PGGSS G +G+ LGTD GGS+R P+++CG
Sbjct: 185 MFSYDCSNPLFGQTMNPWKSSKSPGGSSGGEGALIGSGGSPLGLGTDIGGSIRFPSAFCG 244
Query: 136 IFGFRPSHGAVSTAGVIPMAQSFDTV 161
I G +P+ +S +G+ V
Sbjct: 245 ICGLKPTGNRLSKSGLKGCVYGQTAV 270
>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 = 43.9 bits (103), Expect = 3e-05
Identities = 38/216 (17%), Positives = 67/216 (31%), Gaps = 66/216 (30%)
Query: 23 AIKDIFD-VDGHVT---GFGNPDWARTHSAATSTAPAVLAVLSGGATSIGKTI---MDEM 75
A +D+++ D H GF D P L + GG GK I M
Sbjct: 1641 AAQDVWNRADNHFKDTYGFSILDIVIN-------NPVNLTIHFGGEK--GKRIRENYSAM 1691
Query: 76 AYSINGENKHYGTPTNPWAPDRVPGGSSSGSA----------VAVGAKLVDFSLGTD--T 123
+ + K + + A+ L++ + D +
Sbjct: 1692 IFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPAL--TLMEKAAFEDLKS 1749
Query: 124 GGSVRVPASYCGIFGFRPSH--G---A-VSTAGVIPMAQSFDTVGWFAWDPKILNRVGRV 177
G + A++ G H G A S A V+ + V +++ G
Sbjct: 1750 KGLIPADATFAG-------HSLGEYAALASLADVMSIE---SLV-------EVVFYRGM- 1791
Query: 178 LLQ--LPDDASL--------VRPSQVI--FAEDCLQ 201
+Q +P D + P +V F+++ LQ
Sbjct: 1792 TMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQ 1827
Score = 33.5 bits (76), Expect = 0.067
Identities = 11/63 (17%), Positives = 22/63 (34%), Gaps = 7/63 (11%)
Query: 9 SSSAHQLPLSGLT-FAIKDIFDVDGHVTGFGNPDWARTHSAATSTAPAVLAVLSGGATSI 67
S PL G+ A + V + GF P R++ + +++ A +
Sbjct: 232 LSIPISCPLIGVIQLA---HYVVTAKLLGF-TPGELRSYLKGATGHSQ--GLVTAVAIAE 285
Query: 68 GKT 70
+
Sbjct: 286 TDS 288
Score = 31.6 bits (71), Expect = 0.26
Identities = 14/73 (19%), Positives = 26/73 (35%), Gaps = 25/73 (34%)
Query: 140 RP---SHGAVSTAGVIPMAQSFDTVGWFAWDPKILNRVGRVLLQLPDD--ASLVRPSQVI 194
RP SHG++ ++P T +F QL + L P++
Sbjct: 7 RPLTLSHGSLEHVLLVP------TASFFI------------ASQLQEQFNKILPEPTEGF 48
Query: 195 FAEDCLQLSSIPS 207
A+D + ++
Sbjct: 49 AADD--EPTTPAE 59
>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 = 37.5 bits (86), Expect = 0.003
Identities = 15/79 (18%), Positives = 22/79 (27%), Gaps = 15/79 (18%)
Query: 159 DTVGWFAWDPKILNRVG---RVLLQLPDDASLVRPSQVIFAEDCLQLSSIPSDRITQGLV 215
V + K N ++LL R QV + I D + L
Sbjct: 251 LNV----QNAKAWNAFNLSCKILL-------TTRFKQVTDFLSAATTTHISLDHHSMTLT 299
Query: 216 KS-VEKLFGDCRECDSWRL 233
V+ L +C L
Sbjct: 300 PDEVKSLLLKYLDCRPQDL 318
>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 = 34.2 bits (77), Expect = 0.017
Identities = 6/23 (26%), Positives = 10/23 (43%), Gaps = 7/23 (30%)
Query: 92 PWAPDRVPGGSSSGSAVAVGAKL 114
+A D P A+A+ A +
Sbjct: 31 LYADDSAP-------ALAIKATM 46
Score = 28.0 bits (61), Expect = 2.0
Identities = 10/43 (23%), Positives = 16/43 (37%), Gaps = 18/43 (41%)
Query: 23 AIKDIFDVDGHVTGFGNPDWARTHSAATSTAPAVLAVLSGGAT 65
A+K + + + D +APA LA+ AT
Sbjct: 21 ALKKL---QASLKLYA-DD----------SAPA-LAI---KAT 45
>1gu7_A Enoyl-[acyl-carrier-protein] reductase [NADPH, B-specific]
1,mitochondrial; oxidoreductase, thioester reduction,
fatty acids; 1.70A {Candida tropicalis} SCOP: b.35.1.2
c.2.1.1 PDB: 1guf_A* 1n9g_B* 1n9g_A* 1gyr_A 1h0k_A
Length = 364
Score = 27.0 bits (60), Expect = 6.2
Identities = 9/70 (12%), Positives = 19/70 (27%), Gaps = 7/70 (10%)
Query: 98 VPGGSSSGSAVAVGAKLVDFSLGTDTGGSVRVPASYCGIFGFRPSHGAVSTAGVIPMAQS 157
G + VG+ + G V S+ +R +H + I +
Sbjct: 75 PCGNEGLFEVIKVGSNVSSLEAGD------WVIPSHVNFGTWR-THALGNDDDFIKLPNP 127
Query: 158 FDTVGWFAWD 167
+ +
Sbjct: 128 AQSKANGKPN 137
>1zsy_A Mitochondrial 2-enoyl thioester reductase; medium-chain
dehydrogenase/reductase, oxidoreductase, 2-ENOY
thioester reductase; 1.75A {Homo sapiens} PDB: 2vcy_A
Length = 357
Score = 26.5 bits (59), Expect = 7.7
Identities = 12/62 (19%), Positives = 20/62 (32%), Gaps = 7/62 (11%)
Query: 98 VPGGSSSGSAVAVGAKLVDFSLGTDTGGSVRVPASYCGIFGFRPSHGAVSTAGVIPMAQS 157
V G VAVG+ + G V + G+ +R + S +I +
Sbjct: 87 VGGNEGVAQVVAVGSNVTGLKPGD------WVIPANAGLGTWR-TEAVFSEEALIQVPSD 139
Query: 158 FD 159
Sbjct: 140 IP 141
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
0.317 0.134 0.413
Gapped
Lambda K H
0.267 0.0771 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,733,735
Number of extensions: 223927
Number of successful extensions: 463
Number of sequences better than 10.0: 1
Number of HSP's gapped: 445
Number of HSP's successfully gapped: 33
Length of query: 239
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 148
Effective length of database: 4,160,982
Effective search space: 615825336
Effective search space used: 615825336
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (25.3 bits)