RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 024083
(272 letters)
>4a26_A Putative C-1-tetrahydrofolate synthase, cytoplasm; oxidoreductase,
hydrolase, leishmaniasis; 2.70A {Leishmania major}
Length = 300
Score = 442 bits (1139), Expect = e-159
Identities = 137/271 (50%), Positives = 183/271 (67%), Gaps = 5/271 (1%)
Query: 2 KKSIGKVPGLAVILVGERRDSQTYVRNKIKACEEVGIKSIVTEFADGCTEDEVLNALSNY 61
+ G+VPGLA I+VG+R DS+ YV+ K KA EVG+ S E + +++ + +
Sbjct: 31 ELYGGRVPGLASIIVGQRMDSKKYVQLKHKAAAEVGMASFNVELPEDISQEVLEVNVEKL 90
Query: 62 NQDSSINGILVQLPLPQHLDEGKILDAVSLEKDVDGFHPLNIGNLAMRGREPLFIPCTPK 121
N D + +GI+VQLPLP+HL+E + ++ + KD D P+N+G L +GREP F PCT K
Sbjct: 91 NNDPNCHGIIVQLPLPKHLNENRAIEKIHPHKDADALLPVNVGLLHYKGREPPFTPCTAK 150
Query: 122 GCIELLIRSGVEIMGKNAVVIGRSNIVGLPTSLLLQRHHATVSIVHAL--TKNPEQITSE 179
G I LL R G+E+ GK AVV+GRSNIVG P + LL + +ATV+IVH+ T++
Sbjct: 151 GVIVLLKRCGIEMAGKRAVVLGRSNIVGAPVAALLMKENATVTIVHSGTSTEDMIDYLRT 210
Query: 180 ADIVIAAAGVANLVRGSWLKPGAVVLDVGTCPVDVSVDPSCEYGYRLMGDVCYEEAMRLA 239
ADIVIAA G V+G W+K GA V+DVGT PV DPS + GYRL+GDVC+EEA A
Sbjct: 211 ADIVIAAMGQPGYVKGEWIKEGAAVVDVGTTPVP---DPSRKDGYRLVGDVCFEEAAARA 267
Query: 240 SVITPVPGGVGPMTVAMLLSNTLDSAKRAYG 270
+ I+PVPGGVGPMT+AMLL NTL++ K A G
Sbjct: 268 AWISPVPGGVGPMTIAMLLENTLEAFKAALG 298
>1a4i_A Methylenetetrahydrofolate dehydrogenase / methenyltetrahydrofolate
cyclohydrolase...; THF, bifunctional, oxidoreductase;
HET: NDP; 1.50A {Homo sapiens} SCOP: c.2.1.7 c.58.1.2
PDB: 1dia_A* 1dib_A* 1dig_A*
Length = 301
Score = 436 bits (1125), Expect = e-156
Identities = 121/271 (44%), Positives = 177/271 (65%), Gaps = 5/271 (1%)
Query: 2 KKSIGKVPGLAVILVGERRDSQTYVRNKIKACEEVGIKSIVTEFADGCTEDEVLNALSNY 61
++ G P LA++ VG R DS Y+ K+KA EE+GIK+ + TE EV+ +++
Sbjct: 29 EQVPGFTPRLAILQVGNRDDSNLYINVKLKAAEEIGIKATHIKLPRTTTESEVMKYITSL 88
Query: 62 NQDSSINGILVQLPLPQH--LDEGKILDAVSLEKDVDGFHPLNIGNLAMRGREPLFIPCT 119
N+DS+++G LVQLPL ++ ++++A++ EKDVDG +N G LA FIPCT
Sbjct: 89 NEDSTVHGFLVQLPLDSENSINTEEVINAIAPEKDVDGLTSINAGRLARGDLNDCFIPCT 148
Query: 120 PKGCIELLIRSGVEIMGKNAVVIGRSNIVGLPTSLLLQRHHATVSIVHALTKNPEQITSE 179
PKGC+EL+ +GV I G++AVV+GRS IVG P LL ++ATV+ H+ T + ++ ++
Sbjct: 149 PKGCLELIKETGVPIAGRHAVVVGRSKIVGAPMHDLLLWNNATVTTCHSKTAHLDEEVNK 208
Query: 180 ADIVIAAAGVANLVRGSWLKPGAVVLDVGTCPVDVSVDPSCEYGYRLMGDVCYEEAMRLA 239
DI++ A G +V+G W+KPGA+V+D G V D G +++GDV Y+EA A
Sbjct: 209 GDILVVATGQPEMVKGEWIKPGAIVIDCGINYVP---DDKKPNGRKVVGDVAYDEAKERA 265
Query: 240 SVITPVPGGVGPMTVAMLLSNTLDSAKRAYG 270
S ITPVPGGVGPMTVAML+ +T++SAKR
Sbjct: 266 SFITPVPGGVGPMTVAMLMQSTVESAKRFLE 296
>3l07_A Bifunctional protein fold; structural genomics, IDP01849,
methylenetetrahydrofolate dehydrogenase; 1.88A
{Francisella tularensis}
Length = 285
Score = 403 bits (1039), Expect = e-143
Identities = 112/268 (41%), Positives = 153/268 (57%), Gaps = 11/268 (4%)
Query: 1 MKKSIGKVPGLAVILVGERRDSQTYVRNKIKACEEVGIKSIVTEFADGCTEDEVLNALSN 60
K P L I+VG S+TYV +K KAC +VGI S V + TE E+L +
Sbjct: 27 YKHHTAITPKLVAIIVGNDPASKTYVASKEKACAQVGIDSQVITLPEHTTESELLELIDQ 86
Query: 61 YNQDSSINGILVQLPLPQHLDEGKILDAVSLEKDVDGFHPLNIGNLAMRGREPLFIPCTP 120
N DSS++ ILVQLPLP H+++ ++ ++ EKDVDGFHP N+G L +R + CTP
Sbjct: 87 LNNDSSVHAILVQLPLPAHINKNNVIYSIKPEKDVDGFHPTNVGRLQLRD-KKCLESCTP 145
Query: 121 KGCIELLIRSGVEIMGKNAVVIGRSNIVGLPTSLLLQRHHATVSIVHALTKNPEQITSEA 180
KG + +L G++ G AVV+G SN+VG P S LL ATV+ H T + + T++A
Sbjct: 146 KGIMTMLREYGIKTEGAYAVVVGASNVVGKPVSQLLLNAKATVTTCHRFTTDLKSHTTKA 205
Query: 181 DIVIAAAGVANLVRGSWLKPGAVVLDVGTCPVDVSVDPSCEYGYRLMGDVCYEEAMRLAS 240
DI+I A G N + +K GAVV+DVG VD +++GDV + +
Sbjct: 206 DILIVAVGKPNFITADMVKEGAVVIDVGINHVD----------GKIVGDVDFAAVKDKVA 255
Query: 241 VITPVPGGVGPMTVAMLLSNTLDSAKRA 268
ITPVPGGVGPMT+ LL NT A+
Sbjct: 256 AITPVPGGVGPMTITELLYNTFQCAQEL 283
>1b0a_A Protein (fold bifunctional protein); folate, dehydrogenase,
cyclcohydrolase, channeling, oxidoreductase,hydrolase;
2.56A {Escherichia coli K12} SCOP: c.2.1.7 c.58.1.2
Length = 288
Score = 403 bits (1038), Expect = e-143
Identities = 119/271 (43%), Positives = 162/271 (59%), Gaps = 11/271 (4%)
Query: 1 MKKSIGKVPGLAVILVGERRDSQTYVRNKIKACEEVGIKSIVTEFADGCTEDEVLNALSN 60
+ + PGLAV+LVG SQ YV +K KACEEVG S + + +E E+L +
Sbjct: 26 RIAAGLRAPGLAVVLVGSNPASQIYVASKRKACEEVGFVSRSYDLPETTSEAELLELIDT 85
Query: 61 YNQDSSINGILVQLPLPQHLDEGKILDAVSLEKDVDGFHPLNIGNLAMRGREPLFIPCTP 120
N D++I+GILVQLPLP +D K+L+ + +KDVDGFHP N+G L R P PCTP
Sbjct: 86 LNADNTIDGILVQLPLPAGIDNVKVLERIHPDKDVDGFHPYNVGRLCQ--RAPRLRPCTP 143
Query: 121 KGCIELLIRSGVEIMGKNAVVIGRSNIVGLPTSLLLQRHHATVSIVHALTKNPEQITSEA 180
+G + LL R ++ G NAVVIG SNIVG P S+ L T ++ H TKN A
Sbjct: 144 RGIVTLLERYNIDTFGLNAVVIGASNIVGRPMSMELLLAGCTTTVTHRFTKNLRHHVENA 203
Query: 181 DIVIAAAGVANLVRGSWLKPGAVVLDVGTCPVDVSVDPSCEYGYRLMGDVCYEEAMRLAS 240
D++I A G + G W+K GA+V+DVG ++ + +++GDV +E+A + AS
Sbjct: 204 DLLIVAVGKPGFIPGDWIKEGAIVIDVGINRLE---NG------KVVGDVVFEDAAKRAS 254
Query: 241 VITPVPGGVGPMTVAMLLSNTLDSAKRAYGF 271
ITPVPGGVGPMTVA L+ NTL + +
Sbjct: 255 YITPVPGGVGPMTVATLIENTLQACVEYHDP 285
>4a5o_A Bifunctional protein fold; oxidoreductase, hydrolase; 2.20A
{Pseudomonas aeruginosa PAO1}
Length = 286
Score = 403 bits (1037), Expect = e-143
Identities = 129/269 (47%), Positives = 167/269 (62%), Gaps = 11/269 (4%)
Query: 1 MKKSIGKVPGLAVILVGERRDSQTYVRNKIKACEEVGIKSIVTEFADGCTEDEVLNALSN 60
++ +VPGLAVILVG SQ YV +K K CEEVG S + ++D++L +
Sbjct: 28 RRQQGLRVPGLAVILVGTDPASQVYVAHKRKDCEEVGFLSQAYDLPAETSQDDLLALIDR 87
Query: 61 YNQDSSINGILVQLPLPQHLDEGKILDAVSLEKDVDGFHPLNIGNLAMRGREPLFIPCTP 120
N D +I+GILVQLPLP HLD +L+ + +KDVDGFHP NIG LA R PL PCTP
Sbjct: 88 LNDDPAIDGILVQLPLPAHLDASLLLERIHPDKDVDGFHPYNIGRLAQ--RMPLLRPCTP 145
Query: 121 KGCIELLIRSGVEIMGKNAVVIGRSNIVGLPTSLLLQRHHATVSIVHALTKNPEQITSEA 180
KG + LL +G ++ G +AVV+G SNIVG P +L L TV++ H T++ S A
Sbjct: 146 KGIMTLLASTGADLYGMDAVVVGASNIVGRPMALELLLGGCTVTVTHRFTRDLADHVSRA 205
Query: 181 DIVIAAAGVANLVRGSWLKPGAVVLDVGTCPVDVSVDPSCEYGYRLMGDVCYEEAMRLAS 240
D+V+ AAG LV+G W+K GA+V+DVG RL+GDV YE A + AS
Sbjct: 206 DLVVVAAGKPGLVKGEWIKEGAIVIDVGINRQA---------DGRLVGDVEYEVAAQRAS 256
Query: 241 VITPVPGGVGPMTVAMLLSNTLDSAKRAY 269
ITPVPGGVGPMT A LL NTL +A+ +
Sbjct: 257 WITPVPGGVGPMTRACLLENTLHAAEHLH 285
>3p2o_A Bifunctional protein fold; structural genomics, center for
structural genomics of infec diseases, csgid,
alpha-beta-alpha sandwich; HET: NAD; 2.23A
{Campylobacter jejuni subsp}
Length = 285
Score = 402 bits (1036), Expect = e-143
Identities = 128/265 (48%), Positives = 177/265 (66%), Gaps = 10/265 (3%)
Query: 3 KSIGKVPGLAVILVGERRDSQTYVRNKIKACEEVGIKSIVTEFADGCTEDEVLNALSNYN 62
KS G LAVILVG+ SQTYV++K KACEE GIKS+V + T++E+L ++ N
Sbjct: 28 KSKGIESCLAVILVGDNPASQTYVKSKAKACEECGIKSLVYHLNENITQNELLALINTLN 87
Query: 63 QDSSINGILVQLPLPQHLDEGKILDAVSLEKDVDGFHPLNIGNLAMRGREPLFIPCTPKG 122
D S++GILVQLPLP H+ + IL+++ KDVDGFHP+N+G L + G E F+PCTP G
Sbjct: 88 HDDSVHGILVQLPLPDHICKDLILESIISSKDVDGFHPINVGYLNL-GLESGFLPCTPLG 146
Query: 123 CIELLIRSGVEIMGKNAVVIGRSNIVGLPTSLLLQRHHATVSIVHALTKNPEQITSEADI 182
++LL +++ GK+AV+IG SNIVG P + +L ATVS+ H TK+ T +AD+
Sbjct: 147 VMKLLKAYEIDLEGKDAVIIGASNIVGRPMATMLLNAGATVSVCHIKTKDLSLYTRQADL 206
Query: 183 VIAAAGVANLVRGSWLKPGAVVLDVGTCPVDVSVDPSCEYGYRLMGDVCYEEAMRLASVI 242
+I AAG NL+R +K G +V+DVG ++ +++GDV +EE + +S I
Sbjct: 207 IIVAAGCVNLLRSDMVKEGVIVVDVGINRLESG---------KIVGDVDFEEVSKKSSYI 257
Query: 243 TPVPGGVGPMTVAMLLSNTLDSAKR 267
TPVPGGVGPMT+AMLL NT+ SAK
Sbjct: 258 TPVPGGVGPMTIAMLLENTVKSAKN 282
>3ngx_A Bifunctional protein fold; methylenetetrahydrofolate
dehydrogenase/cyclohydrolase; 2.30A {Thermoplasma
acidophilum} PDB: 3ngl_A
Length = 276
Score = 385 bits (992), Expect = e-137
Identities = 79/266 (29%), Positives = 138/266 (51%), Gaps = 15/266 (5%)
Query: 2 KKSIGKVPGLAVILVGERRDSQTYVRNKIKACEEVGIKSIVTEFADGCTEDEVLNALSNY 61
+ G P L +I +G+ + Y R KI+ +++GI + ++ D + ++L + +
Sbjct: 21 IERSGLEPSLKLIQIGDNEAASIYARAKIRRGKKIGIAVDLEKYDD-ISMKDLLKRIDDL 79
Query: 62 NQDSSINGILVQLPLPQHLDEGKILDAVSLEKDVDGFHPLNIGNLAMRGREPLFIPCTPK 121
+D INGI+++ PLP+ D +I+ + KDVD P N G +A+ +P TP+
Sbjct: 80 AKDPQINGIMIENPLPKGFDYYEIVRNIPYYKDVDALSPYNQGLIALN--REFLVPATPR 137
Query: 122 GCIELLIRSGVEIMGKNAVVIGRSNIVGLPTSLLLQRHHATVSIVHALTKNPEQITSEAD 181
I+++ G ++ RS +VG P S++L + TVS+ H+ TK+ +T +
Sbjct: 138 AVIDIMDYYGYH--ENTVTIVNRSPVVGRPLSMMLLNRNYTVSVCHSKTKDIGSMTRSSK 195
Query: 182 IVIAAAGVANLVRGSWLKPGAVVLDVGTCPVDVSVDPSCEYGYRLMGDVCYEEAMRLASV 241
IV+ A G + + PG+VV+DVG V+ +++GD +E+
Sbjct: 196 IVVVAVGRPGFLNREMVTPGSVVIDVGINYVND----------KVVGDANFEDLSEYVEA 245
Query: 242 ITPVPGGVGPMTVAMLLSNTLDSAKR 267
ITPVPGGVGP+T +L N + +A+
Sbjct: 246 ITPVPGGVGPITATNILENVVKAAEF 271
>2c2x_A Methylenetetrahydrofolate dehydrogenase- methenyltetrahydrofolate
cyclohydrolase; NADP; 2.0A {Mycobacterium tuberculosis}
PDB: 2c2y_A
Length = 281
Score = 377 bits (971), Expect = e-133
Identities = 110/267 (41%), Positives = 152/267 (56%), Gaps = 15/267 (5%)
Query: 3 KSIGKVPGLAVILVGERRDSQTYVRNKIKACEEVGIKSIVTEFADGCTEDEVLNALSNYN 62
+ G+ PGL ILVG+ SQ YVR K C +VGI SI + + + + N
Sbjct: 27 DAAGRTPGLGTILVGDDPGSQAYVRGKHADCAKVGITSIRRDLPADISTATLNETIDELN 86
Query: 63 QDSSINGILVQLPLPQHLDEGKILDAVSLEKDVDGFHPLNIGNLAMRGREPLFIPCTPKG 122
+ G +VQLPLP+HLDE L+ V KD DG HP N+G L + P +PCTP+G
Sbjct: 87 ANPDCTGYIVQLPLPKHLDENAALERVDPAKDADGLHPTNLGRLVL--GTPAPLPCTPRG 144
Query: 123 CIELLIRSGVEIMGKNAVVIGRSNIVGLPTSLLLQR--HHATVSIVHALTKNPEQITSEA 180
+ LL R + I G + VVIGR VG P LLL R +ATV++ H T++ +T +A
Sbjct: 145 IVHLLRRYDISIAGAHVVVIGRGVTVGRPLGLLLTRRSENATVTLCHTGTRDLPALTRQA 204
Query: 181 DIVIAAAGVANLVRGSWLKPGAVVLDVGTCPVDVSVDPSCEYGYRLMGDVCYEEAMRLAS 240
DIV+AA GVA+L+ ++PGA V+DVG D L+GDV + + LA
Sbjct: 205 DIVVAAVGVAHLLTADMVRPGAAVIDVGVSRTDD----------GLVGDV-HPDVWELAG 253
Query: 241 VITPVPGGVGPMTVAMLLSNTLDSAKR 267
++P PGGVGP+T A LL+N ++ A+R
Sbjct: 254 HVSPNPGGVGPLTRAFLLTNVVELAER 280
>1edz_A 5,10-methylenetetrahydrofolate dehydrogenase; nucleotide-binding
domain, monofunctional, oxidoreductase; 2.80A
{Saccharomyces cerevisiae} SCOP: c.2.1.7 c.58.1.2 PDB:
1ee9_A*
Length = 320
Score = 325 bits (836), Expect = e-112
Identities = 70/308 (22%), Positives = 112/308 (36%), Gaps = 66/308 (21%)
Query: 2 KKSIGKVPGLAVILVGERRDSQTYVRNKIKACEEVGIKSIVTEFADGCTEDEVLNALSNY 61
K G+ P L L ++ Y K E +G + + +D + A+
Sbjct: 30 KTHNGQGPLLVGFLANNDPAAKMYATWTQKTSESMGFRYDLRVIE---DKDFLEEAIIQA 86
Query: 62 NQDSSINGILVQLPLPQHLDEGKILDAVSLEKDVDGFHPLNIGNL-------AMRGREPL 114
N D S+NGI+V P+ + + + V EKDV+G + + NL R
Sbjct: 87 NGDDSVNGIMVYFPVFGNAQDQYLQQVVCKEKDVEGLNHVYYQNLYHNVRYLDKENRLKS 146
Query: 115 FIPCTPKGCIELL---------IRSGVEIMGKNAVVIGRSNIVGLPTSLLLQRHHATVSI 165
+PCTP +++L + G + GK +VI RS IVG P + LL ATV
Sbjct: 147 ILPCTPLAIVKILEFLKIYNNLLPEGNRLYGKKCIVINRSEIVGRPLAALLANDGATVYS 206
Query: 166 VHALTKN-------------------------PEQITSEADIVIAAAGVAN-LVRGSWLK 199
V ++ + ++D+VI N ++K
Sbjct: 207 VDVNNIQKFTRGESLKLNKHHVEDLGEYSEDLLKKCSLDSDVVITGVPSENYKFPTEYIK 266
Query: 200 PGAVVLDVGTCPVDVSVDPSCEYGYRLMGDVCYEEAMRLASVITPVPGGVGPMTVAMLLS 259
GAV ++ ++ AS+ P+ G V T+AMLL
Sbjct: 267 EGAVCINFACTKNF------------------SDDVKEKASLYVPMTGKV---TIAMLLR 305
Query: 260 NTLDSAKR 267
N L +
Sbjct: 306 NMLRLVRN 313
>3d4o_A Dipicolinate synthase subunit A; NP_243269.1, structural GEN joint
center for structural genomics, JCSG, protein structu
initiative, PSI-2; HET: MSE TAR; 2.10A {Bacillus
halodurans}
Length = 293
Score = 55.7 bits (134), Expect = 3e-09
Identities = 28/163 (17%), Positives = 55/163 (33%), Gaps = 33/163 (20%)
Query: 119 TPKGCIELLIR-SGVEIMGKNAVVIGRSNIVGLPTSLLLQRHHATVSIVHALTKNPEQIT 177
T +G I + I+ + I G N V+G + G+ + A V + + +I
Sbjct: 137 TAEGTIMMAIQHTDFTIHGANVAVLGLGRV-GMSVARKFAALGAKVKVGARESDLLARIA 195
Query: 178 S----------------EADIVIAA--AGVANLVRGSWLKPGAVVLDVGTCPVDVSVDPS 219
+ D+ I A V + + V+D+ + P +
Sbjct: 196 EMGMEPFHISKAAQELRDVDVCINTIPALVVTANVLAEMPSHTFVIDLASKPGGTDFRYA 255
Query: 220 CEYGYRLMGDVCYEEAMRLASVITPVPGGVGPMTVAMLLSNTL 262
+ G + + + +PG V P T +L++ L
Sbjct: 256 EKRGIKALL-------------VPGLPGIVAPKTAGRILADVL 285
>2rir_A Dipicolinate synthase, A chain; structural genomics, APC1343,
PSI-2, structure initiative; HET: MSE NAP; 2.79A
{Bacillus subtilis}
Length = 300
Score = 40.2 bits (94), Expect = 4e-04
Identities = 29/167 (17%), Positives = 50/167 (29%), Gaps = 41/167 (24%)
Query: 119 TPKGCIELLI-RSGVEIMGKNAVVIGRSNIVGLPTSLLLQRHHATVSIV----------- 166
T +G I L I + I G V+G G+ + A V +
Sbjct: 139 TVEGTIMLAIQHTDYTIHGSQVAVLG-LGRTGMTIARTFAALGANVKVGARSSAHLARIT 197
Query: 167 -----HALTKNPEQITSEADIVIAAAGVANLVRG--SWLKPGAVVLDVGTCPVDVSVDPS 219
T ++ + DI I L + S + P ++ +D++ P
Sbjct: 198 EMGLVPFHTDELKEHVKDIDICINTIPSMILNQTVLSSMTPKTLI-------LDLASRPG 250
Query: 220 CEYGYRLMGDVCYEEAMRLASVI----TPVPGGVGPMTVAMLLSNTL 262
+ + +PG V P T +L+N L
Sbjct: 251 G----------TDFKYAEKQGIKALLAPGLPGIVAPKTAGQILANVL 287
>2pv7_A T-protein [includes: chorismate mutase (EC 5.4.99 and prephenate
dehydrogenase (EC...; 1574749, chorismate mutase type
II; HET: MSE TYR NAD; 2.00A {Haemophilus influenzae}
SCOP: a.100.1.12 c.2.1.6
Length = 298
Score = 35.8 bits (83), Expect = 0.010
Identities = 16/83 (19%), Positives = 30/83 (36%), Gaps = 13/83 (15%)
Query: 135 MGKNAVVIGRSNIVGLPTSLL---LQRHHATVSIV-HALTKNPEQITSEADIVIAAAGVA 190
+ K +V G G L L+ +SI+ E I + AD+VI + +
Sbjct: 21 IHKIVIVGG----YGKLGGLFARYLRASGYPISILDREDWAVAESILANADVVIVSVPIN 76
Query: 191 NLVR-----GSWLKPGAVVLDVG 208
+ +L ++ D+
Sbjct: 77 LTLETIERLKPYLTENMLLADLT 99
>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 = 36.0 bits (82), Expect = 0.012
Identities = 29/182 (15%), Positives = 59/182 (32%), Gaps = 55/182 (30%)
Query: 14 ILVGERRDSQTYVRNKIKACEEVGIKSIVTEFADGCTEDEVLNALSNYNQDSSINGILVQ 73
IL+ R Q V + + A I + + T DEV + L Y ++
Sbjct: 268 ILL-TTRFKQ--VTDFLSAATTTHIS--LDHHSMTLTPDEVKSLLLKY-----LDCRPQD 317
Query: 74 LPLPQHLDEGKILDAVSLEKDVDGFHPLNIGNLAMRGREPLFIPCTPK-----GCIEL-- 126
LP ++V +P + +A R+ T C +L
Sbjct: 318 LP-----------------REVLTTNPRRLSIIAESIRDG---LATWDNWKHVNCDKLTT 357
Query: 127 LIRSGVEIMGKN-------AVVIGRSNIVGLPTSLLLQRHHATVSIV--HALTKNPEQIT 177
+I S + ++ + + + +PT LL S++ + + +
Sbjct: 358 IIESSLNVLEPAEYRKMFDRLSVFPPS-AHIPTILL--------SLIWFDVIKSDVMVVV 408
Query: 178 SE 179
++
Sbjct: 409 NK 410
Score = 32.9 bits (74), Expect = 0.11
Identities = 16/111 (14%), Positives = 28/111 (25%), Gaps = 48/111 (43%)
Query: 37 GI-KSIVTEFADGCTEDEVLNA---------LSNYNQDSSINGILVQL------------ 74
G K+ V D C +V L N N ++ +L +L
Sbjct: 160 GSGKTWVA--LDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS 217
Query: 75 ----PLPQHLDEGK-----------------ILDAVSLEKDVDGFHPLNIG 104
+ + + +L V K + F N+
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAF---NLS 265
>2i99_A MU-crystallin homolog; thyroid hormine binding protein,
oxidoreductase; HET: NDP; 2.60A {Homo sapiens}
Length = 312
Score = 35.3 bits (82), Expect = 0.014
Identities = 13/53 (24%), Positives = 24/53 (45%), Gaps = 2/53 (3%)
Query: 170 TKNPEQITSEADIVIAA-AGVANLVRGSWLKPGAVVLDVGT-CPVDVSVDPSC 220
+ ++ + AD++I ++ G W+KPGA + VG P +D
Sbjct: 187 CSSVQEAVAGADVIITVTLATEPILFGEWVKPGAHINAVGASRPDWRELDDEL 239
>1omo_A Alanine dehydrogenase; two-domain, beta-sandwich-dimer,
rossmann-fold NAD domain, human MU crystallin homolog;
HET: NAD; 2.32A {Archaeoglobus fulgidus} SCOP: c.2.1.13
PDB: 1vll_A
Length = 322
Score = 33.8 bits (78), Expect = 0.042
Identities = 9/53 (16%), Positives = 21/53 (39%), Gaps = 2/53 (3%)
Query: 170 TKNPEQITSEADIVIAA-AGVANLVRGSWLKPGAVVLDVGT-CPVDVSVDPSC 220
+ P + S D+++ +V+ W++ G + +G P +D
Sbjct: 178 SVQPAEEASRCDVLVTTTPSRKPVVKAEWVEEGTHINAIGADGPGKQELDVEI 230
>3b1f_A Putative prephenate dehydrogenase; enzyme, 4-hydroxyphenylpyruvate,
oxidative decarboxylation pathway, tyrosine
biosynthesis, oxidoreduct; HET: NAD; 2.10A
{Streptococcus mutans} PDB: 3dzb_A
Length = 290
Score = 32.9 bits (76), Expect = 0.076
Identities = 10/50 (20%), Positives = 19/50 (38%), Gaps = 6/50 (12%)
Query: 165 IVHALTKNPEQITSEADIVI------AAAGVANLVRGSWLKPGAVVLDVG 208
IV T + + + AD++I ++ LK ++ D G
Sbjct: 52 IVDEATADFKVFAALADVIILAVPIKKTIDFIKILADLDLKEDVIITDAG 101
>1x7d_A Ornithine cyclodeaminase; binds NAD+, binds L-ornithine, binds
L-proline, 2 bundle, beta barrel, rossmann fold, lyase;
HET: NAD ORN MES; 1.60A {Pseudomonas putida} SCOP:
c.2.1.13 PDB: 1u7h_A*
Length = 350
Score = 33.1 bits (76), Expect = 0.087
Identities = 11/55 (20%), Positives = 19/55 (34%), Gaps = 4/55 (7%)
Query: 170 TKNPEQITSEADIVIAA-AGVAN--LVRGSWLKPGAVVLDVGT-CPVDVSVDPSC 220
+ + DI+ A A ++ L+PG + VG CP +
Sbjct: 185 ASSVAEAVKGVDIITTVTADKAYATIITPDMLEPGMHLNAVGGDCPGKTELHADV 239
>3hdj_A Probable ornithine cyclodeaminase; APC62486, bordetella pertussis
TOH structural genomics, PSI-2, protein structure
initiative; 1.70A {Bordetella pertussis}
Length = 313
Score = 32.6 bits (75), Expect = 0.098
Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 2/51 (3%)
Query: 172 NPEQITSEADIVIAA-AGVANLVRGSWLKPGAVVLDVGT-CPVDVSVDPSC 220
P I ++ADIV+ A L G L+ GA V +G+ P +D
Sbjct: 176 APADIAAQADIVVTATRSTTPLFAGQALRAGAFVGAIGSSLPHTRELDDEA 226
>2hk9_A Shikimate dehydrogenase; shikimate pathway, drug design,
oxidoreductase; HET: ATR SKM NAP; 2.20A {Aquifex
aeolicus} PDB: 2hk8_A 2hk7_A
Length = 275
Score = 31.3 bits (72), Expect = 0.23
Identities = 19/112 (16%), Positives = 39/112 (34%), Gaps = 32/112 (28%)
Query: 122 GCIELLIRSGVEIMGKNAVVIG-----RSNIVGLPTSLLLQRHHATVSIV-------HAL 169
G ++ L E+ K+ +V+G R+ I L + A V + L
Sbjct: 115 GFLKSLKSLIPEVKEKSILVLGAGGASRAVIYA------LVKEGAKVFLWNRTKEKAIKL 168
Query: 170 TKN--------PEQITSEADIVIAAAGV------ANLVRGSWLKPGAVVLDV 207
+ PE++ + +++ V + +K VV+D+
Sbjct: 169 AQKFPLEVVNSPEEVIDKVQVIVNTTSVGLKDEDPEIFNYDLIKKDHVVVDI 220
>2f1k_A Prephenate dehydrogenase; tyrosine synthesis, X-RA crystallography
structure, oxidoreductase; HET: OMT NAP; 1.55A
{Synechocystis SP} SCOP: a.100.1.12 c.2.1.6
Length = 279
Score = 30.2 bits (69), Expect = 0.61
Identities = 9/49 (18%), Positives = 18/49 (36%), Gaps = 6/49 (12%)
Query: 165 IVHALTKNPEQITSEADIVIAAAGVANLVR-----GSWLKPGAVVLDVG 208
+V ++ + A I+ + ++ L P A+V DV
Sbjct: 44 LVDEAGQDLSLL-QTAKIIFLCTPIQLILPTLEKLIPHLSPTAIVTDVA 91
>3ggo_A Prephenate dehydrogenase; TYRA, HPP, NADH, alpha-beta,
oxidoreductase; HET: NAI ENO; 2.15A {Aquifex aeolicus}
PDB: 3ggg_D* 3ggp_A*
Length = 314
Score = 29.2 bits (66), Expect = 1.6
Identities = 10/50 (20%), Positives = 17/50 (34%), Gaps = 6/50 (12%)
Query: 165 IVHALTKNPEQI-TSEADIVIAAAGVANLVR-----GSWLKPGAVVLDVG 208
I+ T + ++ D V+ ++ V L A V D G
Sbjct: 79 IIDEGTTSIAKVEDFSPDFVMLSSPVRTFREIAKKLSYILSEDATVTDQG 128
>2g5c_A Prephenate dehydrogenase; TYRA, oxidoreductase; HET: NAD; 1.90A
{Aquifex aeolicus} SCOP: a.100.1.12 c.2.1.6
Length = 281
Score = 29.1 bits (66), Expect = 1.6
Identities = 10/50 (20%), Positives = 17/50 (34%), Gaps = 6/50 (12%)
Query: 165 IVHALTKNPEQI-TSEADIVIAAAGVANLVR-----GSWLKPGAVVLDVG 208
I+ T + ++ D V+ ++ V L A V D G
Sbjct: 47 IIDEGTTSIAKVEDFSPDFVMLSSPVRTFREIAKKLSYILSEDATVTDQG 96
>3o8q_A Shikimate 5-dehydrogenase I alpha; structural genomics, center for
structural genomics of infec diseases, csgid; HET: EPE;
1.45A {Vibrio cholerae biovar el tor} PDB: 3sef_A*
3pgj_A* 3o8q_B*
Length = 281
Score = 28.7 bits (65), Expect = 2.1
Identities = 21/111 (18%), Positives = 37/111 (33%), Gaps = 27/111 (24%)
Query: 122 GCIELLIRSGVEIMGKNAVVIG-----RSNIVGL----PTSLL-----------LQRHHA 161
G ++ L+ V + G ++IG R + L P S+ L A
Sbjct: 112 GLVQDLLAQQVLLKGATILLIGAGGAARGVLKPLLDQQPASITVTNRTFAKAEQLAELVA 171
Query: 162 TVSIVHALTKNPEQITSEADIVIAA--AGVAN---LVRGSWLKPGAVVLDV 207
V A EQ+ D++I + A + + +V D+
Sbjct: 172 AYGEVKAQ--AFEQLKQSYDVIINSTSASLDGELPAIDPVIFSSRSVCYDM 220
>1lu9_A Methylene tetrahydromethanopterin dehydrogenase; alpha/beta twisted
open sheet structure, oxidoreductase; 1.90A
{Methylobacterium extorquens} SCOP: c.2.1.7 c.58.1.4
PDB: 1lua_A*
Length = 287
Score = 28.7 bits (64), Expect = 2.1
Identities = 16/60 (26%), Positives = 27/60 (45%), Gaps = 3/60 (5%)
Query: 131 GVEIMGKNAVVIGRSNIVGLPTSLLLQRHHATVSIVHALTKNPEQITSEADIVIAAAGVA 190
G + GK AVV+ + VG+ ++ LL A V + + ++ + AD V V
Sbjct: 114 GGSVKGKKAVVLAGTGPVGMRSAALLAGEGAEVVLCG---RKLDKAQAAADSVNKRFKVN 170
>3ce6_A Adenosylhomocysteinase; protein-substrate complex, dimer of dimers,
NAD binding DOMA amino acid insertional region,
hydrolase; HET: ADN NAD; 1.60A {Mycobacterium
tuberculosis} PDB: 3dhy_A* 2zj0_A* 2ziz_A* 2zj1_A*
Length = 494
Score = 28.6 bits (64), Expect = 2.5
Identities = 21/93 (22%), Positives = 41/93 (44%), Gaps = 17/93 (18%)
Query: 132 VEIMGKNAVVIGRSNIVGLPTSLLLQRHHATVSI-----VHAL--------TKNPEQITS 178
I GK ++ G + VG + ++ A VS+ ++AL E+
Sbjct: 270 ALIGGKKVLICGYGD-VGKGCAEAMKGQGARVSVTEIDPINALQAMMEGFDVVTVEEAIG 328
Query: 179 EADIVIAAAGVANLVRG---SWLKPGAVVLDVG 208
+ADIV+ A G +++ +K A++ ++G
Sbjct: 329 DADIVVTATGNKDIIMLEHIKAMKDHAILGNIG 361
>2vhw_A Alanine dehydrogenase; NAD, secreted, oxidoreductase; HET: NAI;
2.0A {Mycobacterium tuberculosis} PDB: 2vhx_A* 2vhy_A
2vhz_A* 2vhv_A* 2voe_A 2voj_A*
Length = 377
Score = 28.2 bits (64), Expect = 2.7
Identities = 17/56 (30%), Positives = 24/56 (42%), Gaps = 23/56 (41%)
Query: 174 EQITSEADIVIAAAGVANLVRG------------SWLKPGAVVLDVGTCPVDVSVD 217
E AD+VI A LV G + +KPGAV+ VD+++D
Sbjct: 226 EGAVKRADLVIGAV----LVPGAKAPKLVSNSLVAHMKPGAVL-------VDIAID 270
>3don_A Shikimate dehydrogenase; alpha-beta structure, rossman fold,
amino-acid biosynthesis, amino acid biosynthesis, NADP,
oxidoreductase; 2.10A {Staphylococcus epidermidis} PDB:
3doo_A*
Length = 277
Score = 28.3 bits (64), Expect = 2.8
Identities = 15/107 (14%), Positives = 35/107 (32%), Gaps = 21/107 (19%)
Query: 122 GCIELLIRSGVEIMGKNAVVIG-----RSNIVGL----PTSLLL-----QRHHATVSIVH 167
G + L + I +++G + L +L + R + ++
Sbjct: 103 GYVNGLKQIYEGIEDAYILILGAGGASKGIANELYKIVRPTLTVANRTMSRFNNWSLNIN 162
Query: 168 ALT-KNPEQITSEADIVIAAAGV------ANLVRGSWLKPGAVVLDV 207
+ + E E DI+I +++ + L +V D+
Sbjct: 163 KINLSHAESHLDEFDIIINTTPAGMNGNTDSVISLNRLASHTLVSDI 209
>2o7s_A DHQ-SDH PR, bifunctional 3-dehydroquinate dehydratase/shikima
dehydrogenase; shikimate, NADPH, dehydroshikimate,
bifunctional enzyme; HET: DHK TLA NAP; 1.78A
{Arabidopsis thaliana} PDB: 2o7q_A* 2gpt_A*
Length = 523
Score = 28.1 bits (63), Expect = 3.0
Identities = 18/118 (15%), Positives = 30/118 (25%), Gaps = 36/118 (30%)
Query: 120 PKGCIELLIRSGVEIMGKNAVVIG-----RSNIVGLPTSLLLQRHHATVSIV-------- 166
G + S + K VVIG ++ G + A V I
Sbjct: 348 SSGDPSSVPSSSSPLASKTVVVIGAGGAGKALAYGA------KEKGAKVVIANRTYERAL 401
Query: 167 ----------HALTKNPEQITSEADIVIAAAGV-------ANLVRGSWLKPGAVVLDV 207
+LT + ++ + + LK A+V D
Sbjct: 402 ELAEAIGGKALSLTDLDNYHPEDGMVLANTTSMGMQPNVEETPISKDALKHYALVFDA 459
>3qsg_A NAD-binding phosphogluconate dehydrogenase-like P; structural
genomics, PSI-biology, midwest center for structu
genomics; 1.90A {Alicyclobacillus acidocaldarius subsp}
Length = 312
Score = 27.9 bits (62), Expect = 3.3
Identities = 13/49 (26%), Positives = 19/49 (38%), Gaps = 7/49 (14%)
Query: 173 PEQITSEADIVI------AAAGVANLVRGSWLKPGAVVLDVGTCPVDVS 215
++ E D++ AA VA G L GA+ D +C V
Sbjct: 77 VAEVAGECDVIFSLVTAQAALEVAQQA-GPHLCEGALYADFTSCSPAVK 124
>3t4e_A Quinate/shikimate dehydrogenase; structural genomics, center for
structural genomics of infec diseases, csgid; HET: NAD;
1.95A {Salmonella enterica subsp} PDB: 1npd_A* 1o9b_A*
1vi2_A*
Length = 312
Score = 28.0 bits (63), Expect = 3.5
Identities = 19/123 (15%), Positives = 35/123 (28%), Gaps = 37/123 (30%)
Query: 122 GCIELLIRSGVEIMGKNAVVIG-----RSNIVGLP------------TSLLLQRHHATVS 164
G I + SG ++ GK V++G + ++ A
Sbjct: 134 GHIRAIKESGFDMRGKTMVLLGAGGAATAIGAQAAIEGIKEIKLFNRKDDFFEKAVAFAK 193
Query: 165 IVHALTKNPEQITS------------EADIVI--------AAAGVANLVRGSWLKPGAVV 204
V+ T +T ADI+ + + S L+P +V
Sbjct: 194 RVNENTDCVVTVTDLADQHAFTEALASADILTNGTKVGMKPLENESLIGDVSLLRPELLV 253
Query: 205 LDV 207
+
Sbjct: 254 TEC 256
>2b0j_A 5,10-methenyltetrahydromethanopterin hydrogenase; rossmann fold,
helix bundle, oxidoreductase; 1.75A {Methanocaldococcus
jannaschii} SCOP: a.100.1.11 c.2.1.6 PDB: 3f47_A*
3daf_A* 3dag_A* 3f46_A* 3h65_A*
Length = 358
Score = 27.8 bits (61), Expect = 3.5
Identities = 12/52 (23%), Positives = 17/52 (32%), Gaps = 6/52 (11%)
Query: 169 LTKNPEQITSEADIVIAAAGVANLVRG------SWLKPGAVVLDVGTCPVDV 214
+T + + ADIVI N + GA+V T P
Sbjct: 131 VTSDDREAVEGADIVITWLPKGNKQPDIIKKFADAIPEGAIVTHACTIPTTK 182
>2eez_A Alanine dehydrogenase; TTHA0216, structural genomic NPPSFA,
national project on protein structural and function
analyses; 2.71A {Thermus thermophilus}
Length = 369
Score = 27.8 bits (63), Expect = 3.5
Identities = 17/56 (30%), Positives = 24/56 (42%), Gaps = 23/56 (41%)
Query: 174 EQITSEADIVIAAAGVANLVRG------------SWLKPGAVVLDVGTCPVDVSVD 217
++ AD++I A LV G S +K GAV+ VDV+VD
Sbjct: 224 KKSVQHADLLIGAV----LVPGAKAPKLVTRDMLSLMKEGAVI-------VDVAVD 268
>1pjc_A Protein (L-alanine dehydrogenase); oxidoreductase, NAD; HET: NAD;
2.00A {Phormidium lapideum} SCOP: c.2.1.4 c.23.12.2 PDB:
1pjb_A* 1say_A
Length = 361
Score = 27.8 bits (63), Expect = 3.6
Identities = 16/56 (28%), Positives = 24/56 (42%), Gaps = 23/56 (41%)
Query: 174 EQITSEADIVIAAAGVANLVRG------------SWLKPGAVVLDVGTCPVDVSVD 217
E +EAD++I A LV G ++ G+V+ VDV+VD
Sbjct: 225 ETAVAEADLLIGAV----LVPGRRAPILVPASLVEQMRTGSVI-------VDVAVD 269
>4fsd_A Arsenic methyltransferase; rossmann fold; 1.75A {Cyanidioschyzon
SP} PDB: 4fr0_A* 4fs8_A 3p7e_A 3qnh_A 3qhu_A
Length = 383
Score = 27.7 bits (61), Expect = 4.3
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 188 GVANLVRGSWLKPGAVVLDVG 208
G + + GA VLD+G
Sbjct: 71 GCGSTLPADGSLEGATVLDLG 91
>2egg_A AROE, shikimate 5-dehydrogenase; dimer, X-RAY diffraction,
structural genomics, NPPSFA; 2.25A {Geobacillus
kaustophilus}
Length = 297
Score = 27.5 bits (62), Expect = 4.5
Identities = 21/110 (19%), Positives = 38/110 (34%), Gaps = 29/110 (26%)
Query: 126 LLIRSGVEIMGKNAVVIG-----RSNIVGLPTS----------------LLLQRHHATVS 164
L + + GK +VIG R L ++ L++ S
Sbjct: 131 LEEEMNITLDGKRILVIGAGGGARGIYFSLLSTAAERIDMANRTVEKAERLVREGDERRS 190
Query: 165 IVHALTKNPEQITSEADIVIAAAGV-------ANLVRGSWLKPGAVVLDV 207
+L + ++ +E DI+I V + L+PG +V D+
Sbjct: 191 AYFSLAEAETRL-AEYDIIINTTSVGMHPRVEVQPLSLERLRPGVIVSDI 239
>3n58_A Adenosylhomocysteinase; ssgcid, hydrolase, structural genomics,
seattle structural G center for infectious disease; HET:
ADN NAD; 2.39A {Brucella melitensis biovar abortus}
Length = 464
Score = 27.7 bits (62), Expect = 4.7
Identities = 30/108 (27%), Positives = 46/108 (42%), Gaps = 22/108 (20%)
Query: 122 GCIELL---IRSGVEIM--GKNAVVIGRSNIVGLPTSLLLQRHHATVSI-----VHAL-- 169
GC E L IR G ++M GK AVV G + VG ++ L A V + + AL
Sbjct: 228 GCKESLVDGIRRGTDVMMAGKVAVVCGYGD-VGKGSAQSLAGAGARVKVTEVDPICALQA 286
Query: 170 ------TKNPEQITSEADIVIAAAGVANLVRG---SWLKPGAVVLDVG 208
+ S ADIV+ G +++ +K +V ++G
Sbjct: 287 AMDGFEVVTLDDAASTADIVVTTTGNKDVITIDHMRKMKDMCIVGNIG 334
>3sm3_A SAM-dependent methyltransferases; NESG, structural genomics,
PSI-biology, protein structure in northeast structural
genomics; 2.20A {Methanosarcina mazei}
Length = 235
Score = 27.4 bits (61), Expect = 4.9
Identities = 4/19 (21%), Positives = 10/19 (52%)
Query: 191 NLVRGSWLKPGAVVLDVGT 209
+ ++L+ +LD+G
Sbjct: 21 YPIIHNYLQEDDEILDIGC 39
>1tq1_A AT5G66040, senescence-associated family protein; CESG, structural
genomics, protein structure initiative; NMR {Arabidopsis
thaliana} SCOP: c.46.1.3
Length = 129
Score = 26.2 bits (58), Expect = 6.1
Identities = 8/38 (21%), Positives = 13/38 (34%), Gaps = 2/38 (5%)
Query: 170 TKNPEQITSEADIVIAAAGVANLVRGSWLKPGAVVLDV 207
+ + +E V ++ V L G LDV
Sbjct: 3 HHHHHHLEAEESRVPSSVSVTVAHD--LLLAGHRYLDV 38
>3atr_A Conserved archaeal protein; saturating double bonds, archaeal
membrane precursor, like 2 geranylgeranylglyceryl
phosphate; HET: FDA; 1.80A {Sulfolobus acidocaldarius}
PDB: 3atq_A*
Length = 453
Score = 27.1 bits (60), Expect = 6.9
Identities = 7/48 (14%), Positives = 15/48 (31%)
Query: 147 IVGLPTSLLLQRHHATVSIVHALTKNPEQITSEADIVIAAAGVANLVR 194
+ V + E++T + +V+ A G + R
Sbjct: 118 WDLTTAMKPIFEDGYVKGAVLFNRRTNEELTVYSKVVVEATGYSRSFR 165
>3d7l_A LIN1944 protein; APC89317, structural genomics, PS protein
structure initiative, midwest center for structural
genomics, MCSG; 2.06A {Listeria innocua}
Length = 202
Score = 26.5 bits (59), Expect = 7.3
Identities = 12/69 (17%), Positives = 23/69 (33%), Gaps = 12/69 (17%)
Query: 136 GKNAVVIGRSNIVGLPTSLLLQRHHATVSI------VHALTKNPEQITSEA------DIV 183
++IG S +G L++ ++ V N + I D +
Sbjct: 3 AMKILLIGASGTLGSAVKERLEKKAEVITAGRHSGDVTVDITNIDSIKKMYEQVGKVDAI 62
Query: 184 IAAAGVANL 192
++A G A
Sbjct: 63 VSATGSATF 71
>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion
ATPase, ATP-binding, FIMB nucleotide-binding, transport;
HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB:
3jvu_A*
Length = 356
Score = 26.8 bits (60), Expect = 7.4
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 13 VILVGERRDSQT 24
+ILVGE RD +T
Sbjct: 199 IILVGEMRDLET 210
>3ihm_A Styrene monooxygenase A; rossman fold, anti-parallel beta strands,
dimer, cavity, oxidoreductase; 2.30A {Pseudomonas
putida}
Length = 430
Score = 27.2 bits (59), Expect = 7.5
Identities = 10/42 (23%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 135 MGKNAVVIGRSNIVGLPTSLLLQRHHATVSIVHALTKNPEQI 176
M K ++G + GL L L++H V++ + P++
Sbjct: 21 MKKRIGIVG-AGTAGLHLGLFLRQHDVDVTVYTD--RKPDEY 59
>1o94_A Tmadh, trimethylamine dehydrogenase; electron transport, protein
complex; HET: FMN ADP AMP; 2.0A {Methylophilus
methylotrophus} SCOP: c.1.4.1 c.3.1.1 c.4.1.1 PDB:
1djn_A* 1o95_A* 2tmd_A* 1djq_A*
Length = 729
Score = 26.9 bits (60), Expect = 8.1
Identities = 10/63 (15%), Positives = 16/63 (25%), Gaps = 1/63 (1%)
Query: 127 LIRSGVEIMGKNAVV-IGRSNIVGLPTSLLLQRHHATVSIVHALTKNPEQITSEADIVIA 185
L VE +G + I + + V N E D ++
Sbjct: 581 LHELHVEELGDHFCSRIEPGRMEIYNIWGDGSKRTYRGPGVSPRDANTSHRWIEFDSLVL 640
Query: 186 AAG 188
G
Sbjct: 641 VTG 643
>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase,
hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex
aeolicus} PDB: 2eww_A* 2gsz_A*
Length = 372
Score = 26.8 bits (60), Expect = 8.6
Identities = 8/12 (66%), Positives = 9/12 (75%)
Query: 13 VILVGERRDSQT 24
VI VGE RD +T
Sbjct: 212 VIFVGEMRDLET 223
>3tnl_A Shikimate dehydrogenase; structural genomics, center for structural
genomics of infec diseases, csgid; HET: NAD SKM; 1.45A
{Listeria monocytogenes} PDB: 3toz_A*
Length = 315
Score = 26.8 bits (60), Expect = 9.1
Identities = 20/123 (16%), Positives = 34/123 (27%), Gaps = 37/123 (30%)
Query: 122 GCIELLIRSGVEIMGKNAVVIG-----RSNIVGL------------PTSLLLQRHHATVS 164
G + L +G +I+GK + G + + TV
Sbjct: 140 GYMRALKEAGHDIIGKKMTICGAGGAATAICIQAALDGVKEISIFNRKDDFYANAEKTVE 199
Query: 165 IVHALTKNPEQITS------------EADIVI--------AAAGVANLVRGSWLKPGAVV 204
+++ T Q+ E+ I G L L+P +V
Sbjct: 200 KINSKTDCKAQLFDIEDHEQLRKEIAESVIFTNATGVGMKPFEGETLLPSADMLRPELIV 259
Query: 205 LDV 207
DV
Sbjct: 260 SDV 262
>4df3_A Fibrillarin-like rRNA/TRNA 2'-O-methyltransferase; NADP rossmann
superfamily, S-adenosyl-L-M (SAM) binding, nucleolus;
HET: SAM; 1.73A {Aeropyrum pernix}
Length = 233
Score = 26.6 bits (58), Expect = 9.4
Identities = 6/26 (23%), Positives = 11/26 (42%)
Query: 186 AAGVANLVRGSWLKPGAVVLDVGTCP 211
AA + + +K G +L +G
Sbjct: 63 AAALLKGLIELPVKEGDRILYLGIAS 88
>4ezb_A Uncharacterized conserved protein; structural genomics, protein
structure initiative, NEW YORK structural genomix
research consortium; 2.10A {Sinorhizobium meliloti}
Length = 317
Score = 26.4 bits (58), Expect = 9.4
Identities = 15/86 (17%), Positives = 25/86 (29%), Gaps = 18/86 (20%)
Query: 179 EADIVI------AAAGVANLVRGSWLKPGAVVLDVGTCPVDVSVDPSCEYGYRLMGDVCY 232
AD+V+ A VA L AV +D+ + D L
Sbjct: 87 CADVVLSLVVGAATKAVAASA-APHLSDEAVFIDLNSVGPDTK---------ALAAGAIA 136
Query: 233 EEAMRL--ASVITPVPGGVGPMTVAM 256
+V+ VP + + +
Sbjct: 137 TGKGSFVEGAVMARVPPYAEKVPILV 162
>1v8b_A Adenosylhomocysteinase; hydrolase; HET: NAD ADN; 2.40A {Plasmodium
falciparum} SCOP: c.2.1.4 c.23.12.3
Length = 479
Score = 26.7 bits (59), Expect = 9.8
Identities = 22/108 (20%), Positives = 42/108 (38%), Gaps = 22/108 (20%)
Query: 122 GCIELL---IRSGVEIM--GKNAVVIGRSNIVGLPTSLLLQRHHATVSI-----VHAL-- 169
GC L + + + GK V+ G + VG + ++ A V I + A+
Sbjct: 238 GCRHSLPDGLMRATDFLISGKIVVICGYGD-VGKGCASSMKGLGARVYITEIDPICAIQA 296
Query: 170 ------TKNPEQITSEADIVIAAAGVANLVRG---SWLKPGAVVLDVG 208
++I + D I G ++++ +K AVV ++G
Sbjct: 297 VMEGFNVVTLDEIVDKGDFFITCTGNVDVIKLEHLLKMKNNAVVGNIG 344
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 0.137 0.399
Gapped
Lambda K H
0.267 0.0528 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,264,575
Number of extensions: 268781
Number of successful extensions: 1073
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1032
Number of HSP's successfully gapped: 72
Length of query: 272
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 180
Effective length of database: 4,133,061
Effective search space: 743950980
Effective search space used: 743950980
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 (25.8 bits)