RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy965
(214 letters)
>1p1x_A Deoxyribose-phosphate aldolase; alpha-beta barrel, TIM barrel,
lyase; 0.99A {Escherichia coli} SCOP: c.1.10.1 PDB:
1jcl_A 1jcj_A* 1ktn_A 3npv_B 3npu_A 3npw_A 3nq2_A 3npx_A
3nq8_A 3q2d_A* 3nr0_A 3nqv_A
Length = 260
Score = 139 bits (353), Expect = 3e-41
Identities = 52/185 (28%), Positives = 76/185 (41%), Gaps = 38/185 (20%)
Query: 43 KSLLLKIIEFIDLTTLSGDDTEAVVETLTLKAIQPL----------------SEELKEKV 86
K+ L+ ++ +DLTTL+ DDT+ V L +A P+ + LKE+
Sbjct: 6 KASSLRALKLMDLTTLNDDDTDEKVIALCHQAKTPVGNTAAICIYPRFIPIARKTLKEQG 65
Query: 87 LRGF-VSTVWHGSDNLKTKLVYQPCLSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIV 145
++TV FP G ++ L E DEVD+V
Sbjct: 66 TPEIRIATV--------------------TNFPHGNDDIDIALAETRAAIAYGADEVDVV 105
Query: 146 IQRSLVLNNQWPELFSEVKQMKEKCGEK-IHMKTILAVGELKTSENIYCASMTAMFAGSD 204
++ F VK KE C + +K I+ GELK I AS ++ AG+D
Sbjct: 106 FPYRALMAGNEQVGFDLVKACKEACAAANVLLKVIIETGELKDEALIRKASEISIKAGAD 165
Query: 205 FIKTS 209
FIKTS
Sbjct: 166 FIKTS 170
>2a4a_A Deoxyribose-phosphate aldolase; lyase, TIM beta/alpha barrel, DEOC,
DERA, structur genomics, structural genomics consortium,
SGC; 1.84A {Plasmodium yoelii yoelii} SCOP: c.1.10.1
Length = 281
Score = 130 bits (329), Expect = 2e-37
Identities = 41/190 (21%), Positives = 72/190 (37%), Gaps = 42/190 (22%)
Query: 41 NKKSLLLKIIEFIDLTTLSGDDTEAVVETLTLKAIQPL----------------SEELKE 84
+K +I D T L + TE + L ++++ +E++K+
Sbjct: 24 TEKFAAWSVICLTDHTFLDENGTEDDIRELCNESVKTCPFAAAVCVYPKFVKFINEKIKQ 83
Query: 85 KVLRGFVS--TVWHGSDNLKTKLVYQPCLSQPAGFPSGQYLLETRLHEIELLAKQKVDEV 142
++ V FP G +E L++ E DE+
Sbjct: 84 EINPFKPKIACV--------------------INFPYGTDSMEKVLNDTEKALDDGADEI 123
Query: 143 DIVIQRSLVLNNQWPELFSE---VKQMKEKCGEKIHMKTILAVGELKTSENIYCASMTAM 199
D+VI ++ N L + +K+ K +K I+ VGELKT + I ++ +
Sbjct: 124 DLVINYKKIIENTDEGLKEATKLTQSVKKLLTNK-ILKVIIEVGELKTEDLIIKTTLAVL 182
Query: 200 FAGSDFIKTS 209
+DFIKTS
Sbjct: 183 NGNADFIKTS 192
>4eiv_A Deoxyribose-phosphate aldolase; chemotherapy, brain cysts,
bradyzoite, structural genomics, for structural genomics
of infectious diseases; 1.37A {Toxoplasma gondii} PDB:
3qyq_A*
Length = 297
Score = 129 bits (325), Expect = 1e-36
Identities = 36/194 (18%), Positives = 68/194 (35%), Gaps = 42/194 (21%)
Query: 37 SRIKNKKSLLLKIIEFIDLTTLSGDDTEAVVETLTLKAIQPLS---------------EE 81
K+ ++ F ++ L+ +T V + A + + +E
Sbjct: 14 GGTIYKQFTSRTLLNFFEVAALTDGETNESVAAVCKIAAKDPAIVGVSVRPAFVRFIRQE 73
Query: 82 LKEKVLRGF---VSTVWHGSDNLKTKLVYQPCLSQPAGFPSGQYLLETRLHEIELLAKQK 138
L + V FP G +T E K
Sbjct: 74 LVKSAPEVAGIKVCAA--------------------VNFPEGTGTPDTVSLEAVGALKDG 113
Query: 139 VDEVDIVIQRSLVLNN---QWPELFSEVKQMKEKCGEKIHMKTILAVGELKTSENIYCAS 195
DE++ +I + N + V ++K+ G K +K +L+ GEL+ + I A+
Sbjct: 114 ADEIECLIDWRRMNENVADGESRIRLLVSEVKKVVGPK-TLKVVLSGGELQGGDIISRAA 172
Query: 196 MTAMFAGSDFIKTS 209
+ A+ G+DF++TS
Sbjct: 173 VAALEGGADFLQTS 186
>3r12_A Deoxyribose-phosphate aldolase; TIM beta/alpha-barrel, structural
genomics, joint center for structural genomics, JCSG;
HET: MSE CIT; 1.75A {Thermotoga maritima} PDB: 1o0y_A*
3r13_A*
Length = 260
Score = 114 bits (287), Expect = 2e-31
Identities = 45/209 (21%), Positives = 82/209 (39%), Gaps = 39/209 (18%)
Query: 15 HDIQINTKYLEDLTRQFEAVDLSRIKNKKSLLLKIIEFIDLTTLSGDDTEAVVETLTLKA 74
H I + E + + E + ++ + + + + I+ T L T ++ L L+A
Sbjct: 10 HHHMIEYRIEEAVAKYREFYEFKPVR-ESAGIEDVKSAIEHTNLKPFATPDDIKKLCLEA 68
Query: 75 IQP--------------LSEELKEKVLRGFVSTVWHGSDNLKTKLVYQPCLSQPAGFPSG 120
+ EEL+ ++ V TV GFP G
Sbjct: 69 RENRFHGVCVNPCYVKLAREELEGTDVK--VVTV--------------------VGFPLG 106
Query: 121 QYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNNQWPELFSEVKQMKEKCGEKIHMKTIL 180
T+ HE + DE+D+VI ++ +W ++ +++ + E K +K I+
Sbjct: 107 ANETRTKAHEAIFAVESGADEIDMVINVGMLKAKEWEYVYEDIRSVVESVKGK-VVKVII 165
Query: 181 AVGELKTSENIYCASMTAMFAGSDFIKTS 209
L T E I A + + AG+ F+KTS
Sbjct: 166 ETCYLDTEEKIA-ACVISKLAGAHFVKTS 193
>3oa3_A Aldolase; structural genomics, seattle structural genomics center
for infectious disease, ssgcid, pathogenic fungus; 1.60A
{Coccidioides immitis}
Length = 288
Score = 107 bits (269), Expect = 1e-28
Identities = 33/178 (18%), Positives = 73/178 (41%), Gaps = 38/178 (21%)
Query: 46 LLKIIEFIDLTTLSGDDTEAVVETLTLKAIQP--------------LSEELKEKVLRGFV 91
++ I + ID T LS T + ++ L +A + + L+ + V
Sbjct: 55 VVSIAQIIDHTQLSLSATGSQIDVLCAEAKEYGFATVCVRPDYVSRAVQYLQGTQVG--V 112
Query: 92 STVWHGSDNLKTKLVYQPCLSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLV 151
+ V GF G Y + ++ E + + E+D+V+ +
Sbjct: 113 TCV--------------------IGFHEGTYSTDQKVSEAKRAMQNGASELDMVMNYPWL 152
Query: 152 LNNQWPELFSEVKQMKEKCGEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
++ ++F +++ ++ + +K IL +L T++ I + + AG+D++KTS
Sbjct: 153 SEKRYTDVFQDIRAVRLAAKDA-ILKVILETSQL-TADEIIAGCVLSSLAGADYVKTS 208
>3ndo_A Deoxyribose-phosphate aldolase; ssgcid, NIH, niaid, SBRI, UW,
emerald biostructures, ALS collaborative
crystallography; HET: GOL; 1.25A {Mycobacterium
smegmatis} PDB: 3ng3_A
Length = 231
Score = 106 bits (266), Expect = 1e-28
Identities = 34/178 (19%), Positives = 63/178 (35%), Gaps = 39/178 (21%)
Query: 48 KIIEFIDLTTLSGDDTEAVVETLTLKAIQ-------------PLSEELKEKVLRGFVSTV 94
++ +D T L + T + V L +A ++ + L ++ V
Sbjct: 12 QVAALVDHTLLKPEATPSDVTALVDEAADLGVFAVCVSPPLVSVAAGVAPSGLA--IAAV 69
Query: 95 WHGSDNLKTKLVYQPCLSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNN 154
AGFPSG+++ + E EL E+D+VI L
Sbjct: 70 --------------------AGFPSGKHVPGIKATEAELAVAAGATEIDMVIDVGAALAG 109
Query: 155 QWPELFSEVKQMKEKCGEKIHMKTILAVGELKTSEN---IYCASMTAMFAGSDFIKTS 209
+ +++ +++ +K I+ L + A AG+DF+KTS
Sbjct: 110 DLDAVSADITAVRKAVRAA-TLKVIVESAALLEFSGEPLLADVCRVARDAGADFVKTS 166
>3ngj_A Deoxyribose-phosphate aldolase; lyase, structural genomics,
structural genomics center for infectious disease,
ssgcid; 1.70A {Entamoeba histolytica}
Length = 239
Score = 101 bits (254), Expect = 1e-26
Identities = 41/175 (23%), Positives = 74/175 (42%), Gaps = 38/175 (21%)
Query: 49 IIEFIDLTTLSGDDTEAVVETLTLKAIQP--------------LSEELKEKVLRGFVSTV 94
+ ++ID T L D TE + L +A + +E LK ++ V TV
Sbjct: 27 LAKYIDHTLLKADATEEQIRKLCSEAAEYKFASVCVNPTWVPLCAELLKGTGVK--VCTV 84
Query: 95 WHGSDNLKTKLVYQPCLSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNN 154
GFP G E + +E ++ +Q +EVD+VI +V
Sbjct: 85 --------------------IGFPLGATPSEVKAYETKVAVEQGAEEVDMVINIGMVKAK 124
Query: 155 QWPELFSEVKQMKEKCGEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
++ ++ +VK + + G+ + K I+ L T+E + AG++++KTS
Sbjct: 125 KYDDVEKDVKAVVDASGKAL-TKVIIECCYL-TNEEKVEVCKRCVAAGAEYVKTS 177
>1vcv_A Probable deoxyribose-phosphate aldolase; DERA, hyperthermophIle,
archaea, lyase; 2.00A {Pyrobaculum aerophilum} SCOP:
c.1.10.1
Length = 226
Score = 100 bits (251), Expect = 2e-26
Identities = 37/171 (21%), Positives = 61/171 (35%), Gaps = 33/171 (19%)
Query: 49 IIEFIDLTTLSGDDTEAVVETLTLKAIQ---------PLSEELKEKVLRGF-VSTVWHGS 98
+I +D L T KA + P+ + +LR + V
Sbjct: 1 MIHLVDYALLKPYLTVDEAVAGARKAEELGVAAYCVNPIYAPVVRPLLRKVKLCVV---- 56
Query: 99 DNLKTKLVYQPCLSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNNQWPE 158
A FP G +R+ + LA + DE+D+V LV + +W E
Sbjct: 57 ----------------ADFPFGALPTASRIALVSRLA-EVADEIDVVAPIGLVKSRRWAE 99
Query: 159 LFSEVKQMKEKCGEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+ ++ + G ++ +K I L E Y AG+ FIK+S
Sbjct: 100 VRRDLISVVGAAGGRV-VKVITEEPYL-RDEERYTLYDIIAEAGAHFIKSS 148
>1mzh_A Deoxyribose-phosphate aldolase; alpha-beta barrel, structural
genomics, PSI, protein structure initiative; 2.00A
{Aquifex aeolicus} SCOP: c.1.10.1
Length = 225
Score = 98.0 bits (245), Expect = 2e-25
Identities = 37/174 (21%), Positives = 65/174 (37%), Gaps = 32/174 (18%)
Query: 46 LLKIIEFIDLTTLSGDDTEAVVETLTLKAIQ---------PLSEELKEKVLRGF-VSTVW 95
++ + ++ID L +E +E LK+ + P +L + + V V
Sbjct: 1 MIDVRKYIDNAALKPHLSEKEIEEFVLKSEELGIYAVCVNPYHVKLASSIAKKVKVCCV- 59
Query: 96 HGSDNLKTKLVYQPCLSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNNQ 155
GFP G ++ E + E+DIV S + +
Sbjct: 60 -------------------IGFPLGLNKTSVKVKEAVEAVRDGAQELDIVWNLSAFKSEK 100
Query: 156 WPELFSEVKQMKEKCGEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+ + E+K++ + + K I+ L E I A + AG+DFIKTS
Sbjct: 101 YDFVVEELKEIFRETPSAV-HKVIVETPYL-NEEEIKKAVEICIEAGADFIKTS 152
>1ub3_A Aldolase protein; schiff base, deoxyribose phosphate,
carbinolamine, structural genomics, riken structural
genomics/proteomics initiative; HET: HPD; 1.40A {Thermus
thermophilus} SCOP: c.1.10.1 PDB: 1j2w_A*
Length = 220
Score = 96.8 bits (242), Expect = 4e-25
Identities = 39/177 (22%), Positives = 62/177 (35%), Gaps = 38/177 (21%)
Query: 47 LKIIEFIDLTTLSGDDTEAVVETLTLKAIQP--------------LSEELKEKVLRGFVS 92
+ + ID T L T V +A++ + R +
Sbjct: 1 MDLAAHIDHTLLKPTATLEEVAKAAEEALEYGFYGLCIPPSYVAWVRARYPHAPFR--LV 58
Query: 93 TVWHGSDNLKTKLVYQPCLSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVL 152
TV GFP G E + E L + DEVD+V+
Sbjct: 59 TV--------------------VGFPLGYQEKEVKALEAALACARGADEVDMVLHLGRAK 98
Query: 153 NNQWPELFSEVKQMKEKCGEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
L +EV+ ++E + + +K IL G + E I + A+ G+DF+KTS
Sbjct: 99 AGDLDYLEAEVRAVREAVPQAV-LKVILETGYF-SPEEIARLAEAAIRGGADFLKTS 153
>1n7k_A Deoxyribose-phosphate aldolase; A.pernix, tetramer, alpha-beta TIM
barrel, riken S genomics/proteomics initiative, RSGI,
structural genomics,; 2.00A {Aeropyrum pernix} SCOP:
c.1.10.1
Length = 234
Score = 88.8 bits (221), Expect = 6e-22
Identities = 38/175 (21%), Positives = 62/175 (35%), Gaps = 40/175 (22%)
Query: 49 IIEFIDLTTLSGDDTEAVVETLTLKAIQP--------------LSEELKEKVLRGFVSTV 94
+ ID T LS TE V L +A +S ++ ++ + +V
Sbjct: 20 LASRIDSTLLSPRATEEDVRNLVREASDYGFRCAVLTPVYTVKISGLAEKLGVK--LCSV 77
Query: 95 WHGSDNLKTKLVYQPCLSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNN 154
GFP GQ LE +L E + + + E+D+V SL
Sbjct: 78 --------------------IGFPLGQAPLEVKLVEAQTVLEAGATELDVVPHLSLGPEA 117
Query: 155 QWPELFSEVKQMKEKCGEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+ E+ V K +K IL + + ++ AG+D +KTS
Sbjct: 118 VYREVSGIV---KLAKSYGAVVKVILEAPLW-DDKTLSLLVDSSRRAGADIVKTS 168
>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 = 42.9 bits (100), Expect = 4e-05
Identities = 34/202 (16%), Positives = 61/202 (30%), Gaps = 44/202 (21%)
Query: 22 KYL----EDLTRQFEAV--------------DLSRIKNKKSL----LLKIIEFIDLTTLS 59
KYL +DL R+ L+ N K + L IIE L L
Sbjct: 309 KYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIE-SSLNVLE 367
Query: 60 GDDTEAVVETLTLKAIQPLSEELKEKVLRGFVSTVWHGSDNLKTKLVYQPCLSQPA---G 116
+ + + L ++ P S + +L S +W +V
Sbjct: 368 PAEYRKMFDRL---SVFPPSAHIPTILL----SLIWFDVIKSDVMVVVNKLHKYSLVEKQ 420
Query: 117 FPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNNQWPELFSEVKQMKEKCGEKI-- 174
+ I L K K++ + + RS+V + P+ F + +
Sbjct: 421 PKESTI----SIPSIYLELKVKLEN-EYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYS 475
Query: 175 ----HMKTILAVGELKTSENIY 192
H+K I + ++
Sbjct: 476 HIGHHLKNIEHPERMTLFRMVF 497
>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 = 40.0 bits (93), Expect = 4e-04
Identities = 28/188 (14%), Positives = 63/188 (33%), Gaps = 35/188 (18%)
Query: 2 QL-DQYNT-----TDFKWVHD-----IQINTKYLEDLTRQFEAVDLSRIKNKKSLLLKII 50
QL +Q+N T+ D ++ K+L ++ E S++ +L +
Sbjct: 32 QLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEP---SKVGQFDQVLNLCL 88
Query: 51 EFIDLTTLSGDDTEAVVETLTLKAIQPLSEELKEKVLRGFVSTVWHGSDNLKTKLVYQPC 110
+ L G+D A+ L + +++++ +++ K
Sbjct: 89 TEFENCYLEGNDIHALA--AKLLQENDTTLVKTKELIKNYITARIMAKRPFDKK--SNSA 144
Query: 111 LSQPAG---------FPSGQ-----YLLETR-LHEI-ELLAKQKVDEVDIVIQRSLVLNN 154
L + G F GQ Y E R L++ +L + + +
Sbjct: 145 LFRAVGEGNAQLVAIFG-GQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTL 203
Query: 155 QWPELFSE 162
++F++
Sbjct: 204 DAEKVFTQ 211
Score = 34.6 bits (79), Expect = 0.019
Identities = 46/239 (19%), Positives = 77/239 (32%), Gaps = 81/239 (33%)
Query: 2 QLDQYNTTDFKWVHDIQINTKYLEDLTRQFEAVDLSRIKNKK---SLLLKIIE------- 51
+L Q N T ++ I Y A +++ K S L + +
Sbjct: 107 KLLQENDTTLVKTKEL-IKN-Y-------ITARIMAKRPFDKKSNSALFRAVGEGNAQLV 157
Query: 52 ------------FIDLTTLSGDDT-EAVVETLTLKAIQPLSEELK-----EKVL-RGFVS 92
F +L L T +V L + + LSE ++ EKV +G
Sbjct: 158 AIFGGQGNTDDYFEELRDLY--QTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNI 215
Query: 93 TVWHGSDNLKTKLVYQPCLSQPAGFPSGQYLLETR----LHEIELLAKQKVDEVDIVIQR 148
W L P+ P YLL L I ++ Q +V +
Sbjct: 216 LEW---------------LENPSNTPDKDYLLSIPISCPL--IGVI--QLAHY--VVTAK 254
Query: 149 SLVLNNQWP-ELFSEVKQMKEKCGEKIHMKTIL---AVGELKTSENIYCAS---MTAMF 200
L P EL S + G H + ++ A+ E + E+ + + +T +F
Sbjct: 255 LLGFT---PGELRSYL------KGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLF 304
Score = 31.9 bits (72), Expect = 0.15
Identities = 14/69 (20%), Positives = 25/69 (36%), Gaps = 16/69 (23%)
Query: 15 HDIQINTKYLEDLTRQFEAVDLSRIK---NKKSLLLKIIEF-----IDLTTLSGDDTEAV 66
H + L + DL + N K + +I + DL LSG +E +
Sbjct: 428 H-----SHLLVPASDLINK-DLVKNNVSFNAKDI--QIPVYDTFDGSDLRVLSGSISERI 479
Query: 67 VETLTLKAI 75
V+ + +
Sbjct: 480 VDCIIRLPV 488
Score = 30.4 bits (68), Expect = 0.57
Identities = 24/107 (22%), Positives = 42/107 (39%), Gaps = 20/107 (18%)
Query: 115 AGFPSGQYLLETRLHEIELLAKQKVDEVDIVI-QRSLVLNNQW-----PELF-SE-VKQM 166
+G P Y L L + + A +D+ I +R L +N++ P F S +
Sbjct: 380 SGPPQSLYGLNLTLRKAK--APSGLDQSRIPFSERKLKFSNRFLPVASP--FHSHLLVPA 435
Query: 167 KEKCGEKIHMKTI-LAVGELKTSENIYCASMTAMFAGSDFIKTSGSI 212
+ + + + +++ +Y T F GSD SGSI
Sbjct: 436 SDLINKDLVKNNVSFNAKDIQIP--VYD---T--FDGSDLRVLSGSI 475
>2jhp_A VP4 core protein; viral protein, viral capping enzyme, virion PR
viral protein; HET: SAH GUN; 2.5A {Bluetongue virus 10}
PDB: 2jh8_A* 2jha_A* 2jhc_A* 2jh9_A*
Length = 644
Score = 37.7 bits (87), Expect = 0.002
Identities = 21/105 (20%), Positives = 39/105 (37%), Gaps = 5/105 (4%)
Query: 1 MQLDQYNTTDFKWVHDIQ---INTKYLEDLTRQFEAVDLSRIKNKKSLLLKI-IEFIDLT 56
M+L Y+ D D + ++ + + + D R KK L + I +
Sbjct: 340 MRLRGYSHVDRHMHPDASVTKVVSRDVRKMVELYHGRDRGRFL-KKRLFEHLHIVRKNGL 398
Query: 57 TLSGDDTEAVVETLTLKAIQPLSEELKEKVLRGFVSTVWHGSDNL 101
D+ A + LT + L + E + + ++T W G L
Sbjct: 399 LHESDEPRADLFYLTNRCNMGLEPSIYEVMKKSVIATAWVGRAPL 443
>2f8l_A Hypothetical protein LMO1582; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; HET: MSE SAM; 2.20A {Listeria monocytogenes}
SCOP: c.66.1.45
Length = 344
Score = 29.7 bits (67), Expect = 0.75
Identities = 13/66 (19%), Positives = 26/66 (39%), Gaps = 7/66 (10%)
Query: 18 QINTKYLEDLTRQFEAVDLSRIKNKKSL-------LLKIIEFIDLTTLSGDDTEAVVETL 70
++ YLE + E + + K+ L L E I+L S ++ ++
Sbjct: 35 ELEISYLEAVYETGENLFQKEVLQKEELSSEKQLKLQASYESIELENFSNEEIRKGLQLA 94
Query: 71 TLKAIQ 76
LK ++
Sbjct: 95 LLKGMK 100
>4f2d_A L-arabinose isomerase; structural genomics, PSI-1, protein
structure initiative, NE SGX research center for
structural genomics, nysgxrc; HET: MSE RB0; 2.30A
{Escherichia coli} PDB: 2ajt_A 2hxg_A
Length = 500
Score = 28.8 bits (64), Expect = 1.6
Identities = 14/104 (13%), Positives = 32/104 (30%), Gaps = 3/104 (2%)
Query: 17 IQINTKYLEDLTRQFEAVDLSRIKNKKSLLLKIIEFIDLTTLSGDDTEAVVETLTLKAIQ 76
+NT + DL + ++ + T + G+ + V+E ++
Sbjct: 204 FSVNTWAVGDLVQVVNSISDGDVNALVDEYESCYTMTPATQIHGEKRQNVLEAARIELG- 262
Query: 77 PLSEELKEKVLRGFVSTVWHGSDNLKTKLVYQPCLSQPAGFPSG 120
+ L++ F +T + LK G+
Sbjct: 263 -MKRFLEQGGFHAFTTT-FEDLHGLKQLPGLAVQRLMQQGYGFA 304
>3szu_A ISPH, 4-hydroxy-3-methylbut-2-ENYL diphosphate reductas; 3Fe-4S
iron-sulfur cluster, conserved cysteine, IPP and DMAP
production final STEP; HET: H6P; 1.40A {Escherichia
coli} PDB: 3szl_A* 3f7t_A* 3szo_A* 3t0f_A* 3t0g_A*
3ke8_A* 3ke9_A* 3kef_A* 3kel_A 3kem_A*
Length = 328
Score = 27.5 bits (62), Expect = 3.5
Identities = 9/15 (60%), Positives = 11/15 (73%)
Query: 56 TTLSGDDTEAVVETL 70
TTLS DDT V++ L
Sbjct: 179 TTLSVDDTSDVIDAL 193
>3dnf_A ISPH, LYTB, 4-hydroxy-3-methylbut-2-ENYL diphosphate reductas;
trilobal strucure, open alpha/beta, iron, iron-sulfur,
isopr biosynthesis; 1.65A {Aquifex aeolicus}
Length = 297
Score = 27.1 bits (61), Expect = 4.0
Identities = 5/18 (27%), Positives = 9/18 (50%)
Query: 56 TTLSGDDTEAVVETLTLK 73
TT + + + VV + L
Sbjct: 165 TTQNEEFFKEVVGEIALW 182
>4a4y_A Protein MXIG; protein binding, FHA domain; 1.57A {Shigella
flexneri} PDB: 2xxs_A
Length = 146
Score = 26.2 bits (57), Expect = 6.0
Identities = 7/57 (12%), Positives = 24/57 (42%), Gaps = 6/57 (10%)
Query: 142 VDIVIQRSLVLNNQWPELFSEVKQMKEKCGEKI------HMKTILAVGELKTSENIY 192
++++ + + +++P + + + E + + I+ V + K+ IY
Sbjct: 32 FRLLVKLTNGVGDEFPLYYGNNLIVLGRTIETLEFGNDNFPENIIPVTDSKSDGIIY 88
>1zej_A HBD-9, 3-hydroxyacyl-COA dehydrogenase; structural genomics,
joint center for structural genomics, J protein
structure initiative, PSI; HET: PE8; 2.00A
{Archaeoglobus fulgidus}
Length = 293
Score = 26.0 bits (58), Expect = 8.9
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 32 EAVDLSRIKNKKSLLLKIIEFIDLTTLSGDDT--EAVVETLTLK 73
+A++ +R + + LL KI L + D EAV E L K
Sbjct: 45 KALEAAREQIPEELLSKIEFTTTLEKVKDCDIVMEAVFEDLNTK 88
>3tv9_A Putative peptide maturation protein; structural genomics, center
for structural genomics of infec diseases, csgid,
alpha-beta, cytosol; 2.50A {Shigella flexneri}
Length = 457
Score = 26.1 bits (58), Expect = 9.5
Identities = 6/38 (15%), Positives = 15/38 (39%)
Query: 112 SQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRS 149
+ + +LE + LA K D ++ + ++
Sbjct: 16 ENLYFQSNARKILEEAVSTALELASGKSDGAEVAVSKT 53
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 0.133 0.375
Gapped
Lambda K H
0.267 0.0549 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,100,231
Number of extensions: 176978
Number of successful extensions: 371
Number of sequences better than 10.0: 1
Number of HSP's gapped: 348
Number of HSP's successfully gapped: 29
Length of query: 214
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 124
Effective length of database: 4,188,903
Effective search space: 519423972
Effective search space used: 519423972
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: 55 (25.4 bits)