RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 042017
(156 letters)
>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 = 229 bits (586), Expect = 2e-74
Identities = 79/152 (51%), Positives = 103/152 (67%), Gaps = 4/152 (2%)
Query: 1 NPYVLSADPCGSSSGSAISVAANLAAVSLGTETDGSILCPSSSNSVVGLKPTLGLTSRAG 60
NPY +S PCGSSSGSA++VAANLA+V++GTETDGSI+CP++ N VVGLKPT+GL SR G
Sbjct: 154 NPYRISHSPCGSSSGSAVAVAANLASVAIGTETDGSIVCPAAINGVVGLKPTVGLVSRDG 213
Query: 61 VIPITPRQDSVGPICRTVADAAYVLDAIAGFDHYDPATRAASEYIPRGGYKQFLRPHGLK 120
+IPI+ QD+ GP+ R+VADAA VL AIAG D DPAT Y L P GL+
Sbjct: 214 IIPISFSQDTAGPMARSVADAAAVLTAIAGRDDADPATATMPGRAVY-DYTARLDPQGLR 272
Query: 121 GKRLGIVRNPFFNFDEGSPLAQVFDHHLHTLR 152
GKR+G+++ P + + + + LR
Sbjct: 273 GKRIGLLQTP---LLKYRGMPPLIEQAATELR 301
>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 = 129 bits (326), Expect = 1e-36
Identities = 36/132 (27%), Positives = 56/132 (42%), Gaps = 19/132 (14%)
Query: 1 NPYVLSADPCGSSSGSAISVAANLAAVSLGTETDGSILCPSSSNSVVGLKPTLGLTSRAG 60
NP+ P G+SSGSA +V A + ++LGT+T GS++ P++ +KP+ + G
Sbjct: 120 NPHNTGHSPGGASSGSAAAVGAGMIPLALGTQTGGSVIRPAAYCGTAAIKPSFRMLPTVG 179
Query: 61 VIPITPRQDSVGPICRTVADAAYVLDAIAGFDHYDPATRAASEYIPRGGYKQFLRPHGLK 120
V + D+VG D A L A+ G + K
Sbjct: 180 VKCYSWALDTVGLFGARAEDLARGLLAMTGRSEFSGIV-------------------PAK 220
Query: 121 GKRLGIVRNPFF 132
R+G+VR F
Sbjct: 221 APRIGVVRQEFA 232
>3a1k_A Amidase; AS family enzyme, hydrolase; 2.17A {Rhodococcus SP} PDB:
3a1i_A
Length = 521
Score = 128 bits (324), Expect = 9e-36
Identities = 52/128 (40%), Positives = 66/128 (51%), Gaps = 4/128 (3%)
Query: 1 NPYVLSADPCGSSSGSAISVAANLAAVSLGTETDGSILCPSSSNSVVGLKPTLGLTSRAG 60
NP+ + GSS GSA VA ++G + GSI P++ VVG KPT GL G
Sbjct: 160 NPWDRQREAGGSSGGSAALVANGDVDFAIGGDQGGSIRIPAAFCGVVGHKPTFGLVPYTG 219
Query: 61 VIPITPRQDSVGPICRTVADAAYVLDAIAGFDHYDPATRAASEYIPRGGYKQFLRPHGLK 120
PI D +GPI RTV DAA +L IAG D DP ++ + G Y L +
Sbjct: 220 AFPIERTIDHLGPITRTVHDAALMLSVIAGRDGNDPRQ---ADSVEAGDYLSTLDS-DVD 275
Query: 121 GKRLGIVR 128
G R+GIVR
Sbjct: 276 GLRIGIVR 283
>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 = 121 bits (307), Expect = 2e-33
Identities = 50/128 (39%), Positives = 73/128 (57%), Gaps = 5/128 (3%)
Query: 1 NPYVLSADPCGSSSGSAISVAANLAAVSLGTETDGSILCPSSSNSVVGLKPTLGLTSRAG 60
NP+ L P GSS GSA SVA A VSLG++T GSI P+S V+G+KPT G SR G
Sbjct: 136 NPWDLERVPGGSSGGSAASVAVLSAPVSLGSDTGGSIRQPASFCGVIGIKPTYGRVSRYG 195
Query: 61 VIPITPRQDSVGPICRTVADAAYVLDAIAGFDHYDPATRAASEYIPRGGYKQFLRPHGLK 120
++ D +G R D A VL+ I+G+D D +T S +P + + ++ +K
Sbjct: 196 LVAFASSLDQIGVFGRRTEDVALVLEVISGWDEKD-ST---SAKVPVPEWSEEVKK-EVK 250
Query: 121 GKRLGIVR 128
G ++G+ +
Sbjct: 251 GLKIGLPK 258
>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 = 121 bits (306), Expect = 2e-33
Identities = 50/128 (39%), Positives = 73/128 (57%), Gaps = 5/128 (3%)
Query: 1 NPYVLSADPCGSSSGSAISVAANLAAVSLGTETDGSILCPSSSNSVVGLKPTLGLTSRAG 60
NP+ A P GSS GSA +VAA L +SLG++T GSI P++ VVG+KPT G SR G
Sbjct: 143 NPFDHKAVPGGSSGGSAAAVAAGLVPLSLGSDTGGSIRQPAAYCGVVGMKPTYGRVSRFG 202
Query: 61 VIPITPRQDSVGPICRTVADAAYVLDAIAGFDHYDPATRAASEYIPRGGYKQFLRPHGLK 120
++ D +GP+ R V D A VL+AI+G D D +T S + + + +K
Sbjct: 203 LVAFASSLDQIGPLTRNVKDNAIVLEAISGADVND-ST---SAPVDDVDFTSEIGK-DIK 257
Query: 121 GKRLGIVR 128
G ++ + +
Sbjct: 258 GLKVALPK 265
>2dc0_A Probable amidase; structural genomics, NPPSFA, national project on
protein structural and functional analyses; 2.00A
{Thermus thermophilus}
Length = 434
Score = 118 bits (298), Expect = 1e-32
Identities = 40/132 (30%), Positives = 59/132 (44%), Gaps = 21/132 (15%)
Query: 1 NPYVLSADPCGSSSGSAISVAANLAAVSLGTETDGSILCPSSSNSVVGLKPTLGLTSRAG 60
N S GSS GSA++VA + SLGT+T GSI P+ N VVG KP+ G S G
Sbjct: 136 NAVDPSRQAGGSSGGSAVAVALGIGLASLGTDTGGSIRIPAGFNGVVGFKPSYGRVSLEG 195
Query: 61 VIPITPRQDSVGPICRTVADAAYVLDAIAGFDHYDPATRAASEYIPRGGYKQFLRPHGLK 120
+P++ D GP+ R+V DA ++ + +AG G++
Sbjct: 196 ALPLSRSTDHAGPLTRSVRDAHFLTEILAGESIPLE---------------------GVQ 234
Query: 121 GKRLGIVRNPFF 132
G+ +
Sbjct: 235 NPVFGVPLDFLE 246
>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 = 118 bits (299), Expect = 2e-32
Identities = 47/128 (36%), Positives = 70/128 (54%), Gaps = 6/128 (4%)
Query: 1 NPYVLSADPCGSSSGSAISVAANLAAVSLGTETDGSILCPSSSNSVVGLKPTLGLTSRAG 60
NP+ L P GSS GSA +V+A + +LG++T GS+ P+S VVG KPT GL SR G
Sbjct: 131 NPWDLERVPGGSSGGSAAAVSAGMVVAALGSDTGGSVRQPASLCGVVGYKPTYGLVSRYG 190
Query: 61 VIPITPRQDSVGPICRTVADAAYVLDAIAGFDHYDPATRAASEYIPRGGYKQFLRPHGLK 120
++ D +GPI +TV DAA +++ I+G D D AT + + + G+
Sbjct: 191 LVAFASSLDQIGPITKTVRDAAILMEIISGRDEND-ATTVNRKV----DFLSEIEE-GVS 244
Query: 121 GKRLGIVR 128
G + +
Sbjct: 245 GMKFAVPE 252
>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 = 118 bits (298), Expect = 2e-32
Identities = 55/137 (40%), Positives = 76/137 (55%), Gaps = 6/137 (4%)
Query: 1 NPYVLSADPCGSSSGSAISVAANLAAVSLGTETDGSILCPSSSNSVVGLKPTLGLTSRAG 60
NP+ P GSS GSA ++AA+LA ++LG++T GS+ P++ V GLKPT G SR G
Sbjct: 130 NPFDPDRVPGGSSGGSAAALAADLAPLALGSDTGGSVRQPAAFCGVYGLKPTYGRVSRFG 189
Query: 61 VIPITPRQDSVGPICRTVADAAYVLDAIAGFDHYDPATRAASEYIPRGGYKQFLRPHGLK 120
+I D +GP+ R+V D A ++DA AG D D AT PR +++ L L
Sbjct: 190 LIAYASSLDQIGPMARSVRDLALLMDAAAGPDPLD-ATSLDLP--PR--FQEALEG-PLP 243
Query: 121 GKRLGIVRNPFFNFDEG 137
RLG+VR G
Sbjct: 244 PLRLGVVREALAGNSPG 260
>3a2q_A 6-aminohexanoate-cyclic-dimer hydrolase; alpha/beta fold, nylon
degradation; 1.80A {Arthrobacter SP} PDB: 3a2p_A
Length = 493
Score = 106 bits (267), Expect = 6e-28
Identities = 40/142 (28%), Positives = 60/142 (42%), Gaps = 8/142 (5%)
Query: 1 NPYVLSADPCGSSSGSAISVAANLAAVSLGTETDGSILCPSSSNSVVGLKPTLGLTSRAG 60
NP+ L GSS GS +VAA L+ V+ G + G++ P+S VVGLKPT G S
Sbjct: 139 NPWNLGRSVGGSSGGSGAAVAAALSPVAHGNDAAGAVRIPASVCGVVGLKPTRGRISPGP 198
Query: 61 VIPITPRQD---SVGPICRTVADAAYVLDAIAGFDHYDPATRAASEYIPRGGYKQFLRPH 117
++ + G R+V D A +LD ++G D Y Q +
Sbjct: 199 LVTDSDNVAGAAHEGLFARSVRDIAALLDVVSGHRPGDTFCAPT----ASRPYAQGISE- 253
Query: 118 GLKGKRLGIVRNPFFNFDEGSP 139
R+G++ + P
Sbjct: 254 NPGSLRVGVLTHNPVGDFALDP 275
>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 = 90.2 bits (224), Expect = 5e-22
Identities = 34/102 (33%), Positives = 48/102 (47%), Gaps = 6/102 (5%)
Query: 1 NPYVLSADPCGSSSGSAISVAANLAAVSLGTETDGSILCPSSSNSVVGLKPTLGLTSRAG 60
NP+ S P GSS G + + + + LGT+ GSI PS+ + GLKPT S++G
Sbjct: 200 NPWKSSKSPGGSSGGEGALIGSGGSPLGLGTDIGGSIRFPSAFCGICGLKPTGNRLSKSG 259
Query: 61 VIPITPRQDSV----GPICRTVADAAYVLDAIAGFDH--YDP 96
+ Q +V GP+ R V A L A+ DP
Sbjct: 260 LKGCVYGQTAVQLSLGPMARDVESLALCLKALLCEHLFTLDP 301
>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 = 30.8 bits (69), Expect = 0.22
Identities = 20/97 (20%), Positives = 25/97 (25%), Gaps = 47/97 (48%)
Query: 48 GLKPT--------LG----LTSRAGVIPITPRQDSVGPICRTVADAAYVLDAIAGFDHYD 95
GL P LG L S A V+ I V+ Y
Sbjct: 1751 GLIPADATFAGHSLGEYAALASLADVMSI--------------ESLVEVV-------FY- 1788
Query: 96 PATRAASEYIPRGGYKQFLRPHGLKGK-RLGIVR-NP 130
RG Q P G+ G++ NP
Sbjct: 1789 -----------RGMTMQVAVPRDELGRSNYGMIAINP 1814
>3m2t_A Probable dehydrogenase; PSI, SGXNY, structural genomics, protein
structure initiative; HET: NAD; 2.30A {Chromobacterium
violaceum}
Length = 359
Score = 27.3 bits (61), Expect = 2.3
Identities = 11/88 (12%), Positives = 26/88 (29%), Gaps = 12/88 (13%)
Query: 73 PICRTVADAAYVLDAIA--------GFDH-YDPATRAASEYIPRGGYKQFLRPHGLKGKR 123
P C T+ + ++DA G + + R E +F ++
Sbjct: 100 PPCATLEELETLIDAARRSDVVSGVGMNFKFARPVRQLREMTQVD---EFGETLHIQLNH 156
Query: 124 LGIVRNPFFNFDEGSPLAQVFDHHLHTL 151
+ + + + +HT+
Sbjct: 157 YANKPRAPLWGLDSTLRSFLLAQAIHTI 184
>3pc3_A CG1753, isoform A; CBS, synthase, PLP, heme, aminoacrylate, lyase;
HET: HEM P1T; 1.55A {Drosophila melanogaster} PDB:
3pc2_A* 3pc4_A*
Length = 527
Score = 26.1 bits (58), Expect = 5.9
Identities = 8/16 (50%), Positives = 9/16 (56%)
Query: 10 CGSSSGSAISVAANLA 25
CG SSG A+ A A
Sbjct: 320 CGGSSGGAMHAALEHA 335
>1qp8_A Formate dehydrogenase; oxidoreductase; HET: NDP; 2.80A {Pyrobaculum
aerophilum} SCOP: c.2.1.4 c.23.12.1
Length = 303
Score = 25.6 bits (57), Expect = 6.9
Identities = 5/28 (17%), Positives = 15/28 (53%)
Query: 100 AASEYIPRGGYKQFLRPHGLKGKRLGIV 127
E + RG Y + + ++G+++ ++
Sbjct: 103 QYGEKMKRGDYGRDVEIPLIQGEKVAVL 130
>1jbq_A B, cystathionine beta-synthase, serine sulfhydrase; fold type II of
PLP enzymes, lyase; HET: HEM PLP; 2.60A {Homo sapiens}
SCOP: c.79.1.1 PDB: 1m54_A*
Length = 435
Score = 25.8 bits (57), Expect = 8.2
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 10 CGSSSGSAISVAANLA 25
CG S+GS ++VA A
Sbjct: 368 CGGSAGSTVAVAVKAA 383
>2p8b_A Mandelate racemase/muconate lactonizing enzyme family protein;
enolase superfamily, prediction of function; HET: NSK;
1.70A {Bacillus cereus atcc 14579} PDB: 2p88_A* 2p8c_A*
Length = 369
Score = 25.3 bits (56), Expect = 9.9
Identities = 6/35 (17%), Positives = 11/35 (31%), Gaps = 5/35 (14%)
Query: 10 CGSSSGSAISVAANLAAVS-----LGTETDGSILC 39
GS S+++ +A E G +
Sbjct: 293 VGSMVESSVASSAGFHVAFSKKIITSVELTGPLKF 327
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
0.318 0.136 0.408
Gapped
Lambda K H
0.267 0.0706 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,448,470
Number of extensions: 144398
Number of successful extensions: 409
Number of sequences better than 10.0: 1
Number of HSP's gapped: 396
Number of HSP's successfully gapped: 35
Length of query: 156
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 70
Effective length of database: 4,300,587
Effective search space: 301041090
Effective search space used: 301041090
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: 53 (24.2 bits)