RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780434|ref|YP_003064847.1| dihydroorotate dehydrogenase 2 [Candidatus Liberibacter asiaticus str. psy62] (362 letters) >gnl|CDD|179992 PRK05286, PRK05286, dihydroorotate dehydrogenase 2; Reviewed. Length = 344 Score = 450 bits (1161), Expect = e-127 Identities = 163/347 (46%), Positives = 228/347 (65%), Gaps = 13/347 (3%) Query: 4 ILHKLALRGLTHLDPEIAHHLSIVALKSGLLSFF-------PVHSDPRLNTKVAGISLSN 56 + + LA L LDPE AH L+I ALK + ++DPRL V G++ N Sbjct: 1 MYYPLARPLLFKLDPETAHELTIRALKRASRTPLLSLLRQRLTYTDPRLPVTVMGLTFPN 60 Query: 57 PLGMAAGYDKNAEVPIELLKLGFGFVEIGTVTPHPQAGNPRPRVFRLTKDRAIINKLGFN 116 P+G+AAG+DKN E L LGFGFVE+GTVTP PQ GNP+PR+FRL +D A+IN++GFN Sbjct: 61 PVGLAAGFDKNGEAIDALGALGFGFVEVGTVTPRPQPGNPKPRLFRLPEDEALINRMGFN 120 Query: 117 NAGYHTVFSRLSKIQPTSPIGINLGANKDS--KDFILDYVSGIRLFFTIASYFTINISSP 174 N G + RL K P+GIN+G NKD+ +D + DY+ + + A YFT+NISSP Sbjct: 121 NDGADALAERLKKAYRGIPLGINIGKNKDTPLEDAVDDYLICLEKLYPYADYFTVNISSP 180 Query: 175 NTPGLRSLQKKKNLERLLIHVMQTREEEKIKTGKFVPIFLKISPDLSEEELDDIAVEVLS 234 NTPGLR LQ + L+ LL + + + E +VP+ +KI+PDLS+EELDDIA L Sbjct: 181 NTPGLRDLQYGEALDELLAALKEAQAE----LHGYVPLLVKIAPDLSDEELDDIADLALE 236 Query: 235 HKVEGIIVSNTTLSRKGVQCSDNHEQDGGLSGSPLFLKSTIALAKIRQRVGPKIAIIGTG 294 H ++G+I +NTTLSR G++ N ++ GGLSG PLF +ST + ++ + +G ++ IIG G Sbjct: 237 HGIDGVIATNTTLSRDGLKGLPNADEAGGLSGRPLFERSTEVIRRLYKELGGRLPIIGVG 296 Query: 295 GISSTKDALDKIMAGANLIQLYSAMIYEGISLPKRIIQGLSDFLNKE 341 GI S +DA +KI AGA+L+Q+YS +IYEG L K I++GL+ L ++ Sbjct: 297 GIDSAEDAYEKIRAGASLVQIYSGLIYEGPGLVKEIVRGLARLLRRD 343 >gnl|CDD|178421 PLN02826, PLN02826, dihydroorotate dehydrogenase. Length = 409 Score = 336 bits (864), Expect = 4e-93 Identities = 158/340 (46%), Positives = 206/340 (60%), Gaps = 25/340 (7%) Query: 16 LDPEIAHHLSIVALKSGLLSFFPVHSDPRLNTKVAGISLSNPLGMAAGYDKNAEVPIELL 75 LDPE AH L+I A GL+ L +V G + SNP+G+AAG+DKNAE LL Sbjct: 45 LDPETAHSLAISAAARGLVPREKRPDPSVLGVEVWGRTFSNPIGLAAGFDKNAEAVEGLL 104 Query: 76 KLGFGFVEIGTVTPHPQAGNPRPRVFRLTKDRAIINKLGFNNAGYHTVFSRL------SK 129 LGFGFVEIG+VTP PQ GNP+PRVFRL ++ AIIN+ GFN+ G V RL K Sbjct: 105 GLGFGFVEIGSVTPLPQPGNPKPRVFRLREEGAIINRYGFNSEGIVAVAKRLGAQHGKRK 164 Query: 130 IQPTS------------------PIGINLGANKDSKDFILDYVSGIRLFFTIASYFTINI 171 + TS +G+NLG NK S+D DYV G+R A Y IN+ Sbjct: 165 LDETSSSSFSSDDVKAGGKAGPGILGVNLGKNKTSEDAAADYVQGVRALSQYADYLVINV 224 Query: 172 SSPNTPGLRSLQKKKNLERLLIHVMQTREEEKIKTGKFVPIFLKISPDLSEEELDDIAVE 231 SSPNTPGLR LQ +K L+ LL V+ R+E + P+ +KI+PDLS+E+L+DIA Sbjct: 225 SSPNTPGLRKLQGRKQLKDLLKKVLAARDEMQWGEEGPPPLLVKIAPDLSKEDLEDIAAV 284 Query: 232 VLSHKVEGIIVSNTTLSRKGVQCSDNHEQD-GGLSGSPLFLKSTIALAKIRQRVGPKIAI 290 L+ ++G+I+SNTT+SR H + GGLSG PLF ST L ++ + KI + Sbjct: 285 ALALGIDGLIISNTTISRPDSVLGHPHADEAGGLSGKPLFDLSTEVLREMYRLTRGKIPL 344 Query: 291 IGTGGISSTKDALDKIMAGANLIQLYSAMIYEGISLPKRI 330 +G GG+SS +DA KI AGA+L+QLY+A YEG +L RI Sbjct: 345 VGCGGVSSGEDAYKKIRAGASLVQLYTAFAYEGPALIPRI 384 >gnl|CDD|130108 TIGR01036, pyrD_sub2, dihydroorotate dehydrogenase, subfamily 2. The subfamilies 1 and 2 share extensive homology, particularly toward the C-terminus. This subfamily has a longer N-terminal region. Length = 335 Score = 320 bits (823), Expect = 2e-88 Identities = 151/332 (45%), Positives = 210/332 (63%), Gaps = 10/332 (3%) Query: 11 RGLTHLDPEIAHHLSIVALKSGLLSFF------PVHSDPRLNTKVAGISLSNPLGMAAGY 64 + L LDPE AH L+ L+ G + F + L V G+ NPLG+AAG+ Sbjct: 6 KLLFLLDPESAHELTFQFLRLGTGTPFLALLRSLFGASDPLEVTVLGLKFPNPLGLAAGF 65 Query: 65 DKNAEVPIELLKLGFGFVEIGTVTPHPQAGNPRPRVFRLTKDRAIINKLGFNNAGYHTVF 124 DK+ E L +GFGF+EIGTVTP PQ GNPRPR+FRL +D A+IN++GFNN G + Sbjct: 66 DKDGEAIDALGAMGFGFLEIGTVTPKPQPGNPRPRLFRLIEDEALINRMGFNNHGADVLV 125 Query: 125 SRLSKIQPTSPIGINLGANKD--SKDFILDYVSGIRLFFTIASYFTINISSPNTPGLRSL 182 RL + + PIGIN+G NKD S+D DY + +R +A Y +N+SSPNTPGLR L Sbjct: 126 ERLKRARYKGPIGINIGKNKDTPSEDAKEDYAACLRKLGPLADYLVVNVSSPNTPGLRDL 185 Query: 183 QKKKNLERLLIHVMQTREEEKIKTGKFVPIFLKISPDLSEEELDDIAVEVLSHKVEGIIV 242 Q K L LL V Q E++ ++ VP+ +KI+PDL+E +L+DIA ++ ++G+I Sbjct: 186 QYKAELRDLLTAVKQ--EQDGLRRVHRVPVLVKIAPDLTESDLEDIADSLVELGIDGVIA 243 Query: 243 SNTTLSRKGVQCSDNHEQDGGLSGSPLFLKSTIALAKIRQRVGPKIAIIGTGGISSTKDA 302 +NTT+SR VQ N ++ GGLSG PL KST + ++ + ++ IIG GGISS +DA Sbjct: 244 TNTTVSRSLVQGPKNSDETGGLSGKPLQDKSTEIIRRLYAELQGRLPIIGVGGISSAQDA 303 Query: 303 LDKIMAGANLIQLYSAMIYEGISLPKRIIQGL 334 L+KI AGA+L+Q+YS IY G L K I++ + Sbjct: 304 LEKIRAGASLLQIYSGFIYWGPPLVKEIVKEI 335 >gnl|CDD|180909 PRK07259, PRK07259, dihydroorotate dehydrogenase 1B; Reviewed. Length = 301 Score = 93.3 bits (233), Expect = 9e-20 Identities = 86/343 (25%), Positives = 136/343 (39%), Gaps = 81/343 (23%) Query: 44 RLNTKVAGISLSNPLGMAAG-----------YDKNAEVPIELLKLGFGFVEIGTVTPHPQ 92 RL+ ++ G+ L NP+ A+G YD N G G + + T P+ Sbjct: 1 RLSVELPGLKLKNPVMPASGTFGFGGEYARFYDLN----------GLGAIVTKSTTLEPR 50 Query: 93 AGNPRPRVFRLTKDRAIINKLGFNNAGYHTVFSRLSKIQPTSPIGINLGAN---KDSKDF 149 GNP PR+ ++N +G N G ++ + AN +++ Sbjct: 51 EGNPTPRIAET--PGGMLNAIGLQNPGVDAFIEE--ELPWLEEFDTPIIANVAGSTEEEY 106 Query: 150 I--------LDYVSGIRLFFTIASYFTINISSPN--TPGLRSLQKKKNLERLLIHVMQTR 199 V I L NIS PN G+ + ++ Sbjct: 107 AEVAEKLSKAPNVDAIEL----------NISCPNVKHGGMAFGTDPELAYEVV------- 149 Query: 200 EEEKIKTGKFVPIFLKISP---DLSEEELDDIAVEVLSHKVEGIIVSNTTL-------SR 249 + +K VP+ +K++P D+ E IA +G+ + NT +R Sbjct: 150 --KAVKEVVKVPVIVKLTPNVTDIVE-----IAKAAEEAGADGLSLINTLKGMAIDIKTR 202 Query: 250 KGVQCSDNHEQDGGLSGSPLFLKSTIALAKIRQ-RVGPKIAIIGTGGISSTKDALDKIMA 308 K + N GGLSG + IAL + Q I IIG GGISS +DA++ IMA Sbjct: 203 KPIL--ANVT--GGLSGPAIK---PIALRMVYQVYQAVDIPIIGMGGISSAEDAIEFIMA 255 Query: 309 GANLIQLYSAMIYEGISLPKRIIQGLSDFLNKENEVNFENIRG 351 GA+ +Q+ +A + +II+GL +L+K + E I G Sbjct: 256 GASAVQVGTA-NFYDPYAFPKIIEGLEAYLDKYGIKSIEEIVG 297 >gnl|CDD|130109 TIGR01037, pyrD_sub1_fam, dihydroorotate dehydrogenase (subfamily 1) family protein. This family includes subfamily 1 dihydroorotate dehydrogenases while excluding the closely related subfamily 2 (TIGR01036). This family also includes a number of uncharacterized proteins and a domain of dihydropyrimidine dehydrogenase. The uncharacterized proteins might all be dihydroorotate dehydrogenase. Length = 300 Score = 82.1 bits (203), Expect = 2e-16 Identities = 77/322 (23%), Positives = 142/322 (44%), Gaps = 40/322 (12%) Query: 45 LNTKVAGISLSNPLGMAAG-YDKNAEVPIELLKLGFGFVEIGTVTPHPQAGNPRPRVFRL 103 L ++ GI NPL +A+G E + + G G V ++ P+ G P + Sbjct: 1 LEVELFGIRFKNPLILASGIMGSGVESLRRIDRSGAGAVVTKSIGLEPRPGYRNPTIVET 60 Query: 104 TKDRAIINKLGFNNAGYHTVFSRLSKI--QPTSPIGINLGANKDSKDFILDYVSGIRLFF 161 ++N +G N G L + + +P+ ++ ++F + + Sbjct: 61 PC--GMLNAIGLQNPGVEAFLEELKPVREEFPTPLIASV-YGSSVEEFA-EVAEKLEKAP 116 Query: 162 TIASYFTINISSPN--TPGLRSLQKKKNLERLLIHVMQTREEEKIKTGKFVPIFLKISPD 219 + +N+S P+ G+ Q + ++ + +K VP+F K+SP+ Sbjct: 117 PYVDAYELNLSCPHVKGGGIAIGQDPELSADVV---------KAVKDKTDVPVFAKLSPN 167 Query: 220 LSEEELDDIAVEVLSHKVEGIIVSNTTL-------SRKGVQCSDNHEQDGGLSG---SPL 269 +++ + +IA +G+ + NT + K + + + GGLSG P+ Sbjct: 168 VTD--ITEIAKAAEEAGADGLTLINTLRGMKIDIKTGKPILAN----KTGGLSGPAIKPI 221 Query: 270 FLKSTIALAKIRQRVGPKIAIIGTGGISSTKDALDKIMAGANLIQLYSAMIYEGISLPKR 329 L+ + K+ I IIG GGI+S +DAL+ +MAGA+ +Q+ +A+ Y G K+ Sbjct: 222 ALRMVYDVYKMVD-----IPIIGVGGITSFEDALEFLMAGASAVQVGTAVYYRG-FAFKK 275 Query: 330 IIQGLSDFLNKENEVNFENIRG 351 II+GL FL E + E + G Sbjct: 276 IIEGLIAFLKAEGFTSIEELIG 297 >gnl|CDD|179435 PRK02506, PRK02506, dihydroorotate dehydrogenase 1A; Reviewed. Length = 310 Score = 69.2 bits (170), Expect = 2e-12 Identities = 33/93 (35%), Positives = 59/93 (63%), Gaps = 6/93 (6%) Query: 262 GGLSGSPLFLKSTIALAKIR---QRVGPKIAIIGTGGISSTKDALDKIMAGANLIQLYSA 318 GG+ G ++K T ALA +R QR+ P I IIGTGG+ + +DA + I+ GA+++Q+ +A Sbjct: 216 GGIGGD--YIKPT-ALANVRAFYQRLNPSIQIIGTGGVKTGRDAFEHILCGASMVQVGTA 272 Query: 319 MIYEGISLPKRIIQGLSDFLNKENEVNFENIRG 351 + EG ++ +R+ + L + ++ + E+ RG Sbjct: 273 LHKEGPAVFERLTKELKAIMAEKGYQSLEDFRG 305 Score = 46.5 bits (111), Expect = 1e-05 Identities = 41/144 (28%), Positives = 56/144 (38%), Gaps = 19/144 (13%) Query: 44 RLNTKVAGISLSNPLGMAAG-YDKNAEVPIELLKLGFGFVEIGTVTPHPQAGNPRPRVFR 102 +T++AG N L AAG Y E E+ G + T P+ GNP PR Sbjct: 1 STSTQIAGFKFDNCLMNAAGVYCMTKEELEEVEASAAGAFVTKSATLEPRPGNPEPRYAD 60 Query: 103 LTKDRAIINKLGFNNAG---YHTVFSRLSKIQPTSPIGINL-GANKDSKDFILDYVSGIR 158 IN +G N G Y L K P P +++ G + + IL + Sbjct: 61 TP--LGSINSMGLPNLGFDYYLDYVLELQKKGPNKPHFLSVVGLSPEETHTILKKIQ--- 115 Query: 159 LFFTIASYFT----INISSPNTPG 178 AS F +N+S PN PG Sbjct: 116 -----ASDFNGLVELNLSCPNVPG 134 >gnl|CDD|178112 PLN02495, PLN02495, oxidoreductase, acting on the CH-CH group of donors. Length = 385 Score = 60.2 bits (146), Expect = 7e-10 Identities = 45/162 (27%), Positives = 80/162 (49%), Gaps = 20/162 (12%) Query: 210 VPIFLKISPDLSEEELDDI---AVEVLSHKVEGIIVSNTTLSRKGVQ--------CSDNH 258 VP++ K++P+++ DI A L EG+ NT +S G+ C + + Sbjct: 183 VPVWAKMTPNIT-----DITQPARVALKSGCEGVAAINTIMSVMGINLDTLRPEPCVEGY 237 Query: 259 EQDGGLSGS---PLFLKSTIALAKIRQRVGPK-IAIIGTGGISSTKDALDKIMAGANLIQ 314 GG S P+ L +A+AK+ + P+ ++ G GG+ + DA + I+ GA+ +Q Sbjct: 238 STPGGYSSKAVRPIALAKVMAIAKMMKSEFPEDRSLSGIGGVETGGDAAEFILLGADTVQ 297 Query: 315 LYSAMIYEGISLPKRIIQGLSDFLNKENEVNFENIRGSYTEY 356 + + ++ G L K + L DF+ K N + E+ RG+ Y Sbjct: 298 VCTGVMMHGYPLVKNLCAELQDFMKKHNFSSIEDFRGASLPY 339 >gnl|CDD|181033 PRK07565, PRK07565, dihydroorotate dehydrogenase 2; Reviewed. Length = 334 Score = 45.2 bits (108), Expect = 3e-05 Identities = 39/164 (23%), Positives = 67/164 (40%), Gaps = 46/164 (28%) Query: 210 VPIFLKISPDLSE-----EELD----------------DIAVEVLSHKVEGIIVSNTTLS 248 +P+ +K+SP S + LD DI +E L +V LS Sbjct: 166 IPVAVKLSPYFSNLANMAKRLDAAGADGLVLFNRFYQPDIDLETLE------VVPGLVLS 219 Query: 249 RKGVQCSDNHEQDGGLSGSPLFLKSTIALAKIRQRVGPKIAIIGTGGISSTKDALDKIMA 308 + L PL IA+ RVG +A T G+ +D + ++A Sbjct: 220 TP---------AELRL---PL---RWIAIL--SGRVGADLAA--TTGVHDAEDVIKMLLA 260 Query: 309 GANLIQLYSAMIYEGISLPKRIIQGLSDFLNKENEVNFENIRGS 352 GA+++ + SA++ G I++GL D++ + + + RGS Sbjct: 261 GADVVMIASALLRHGPDYIGTILRGLEDWMERHGYESLQQFRGS 304 >gnl|CDD|181383 PRK08318, PRK08318, dihydropyrimidine dehydrogenase subunit B; Validated. Length = 420 Score = 40.3 bits (95), Expect = 7e-04 Identities = 27/97 (27%), Positives = 49/97 (50%), Gaps = 13/97 (13%) Query: 262 GGLSGS---PLFLKSTIALAKIRQ-RVGPKIA---IIGTGGISSTKDALDKIMAGANLIQ 314 GG G P IAL + + P+ I G GGI + +DA + I+ GA +Q Sbjct: 227 GGYCGPAVKP------IALNMVAEIARDPETRGLPISGIGGIETWRDAAEFILLGAGTVQ 280 Query: 315 LYSAMIYEGISLPKRIIQGLSDFLNKENEVNFENIRG 351 + +A + G + + +I GLS +++++ + E++ G Sbjct: 281 VCTAAMQYGFRIVEDMISGLSHYMDEKGFASLEDMVG 317 >gnl|CDD|179050 PRK00507, PRK00507, deoxyribose-phosphate aldolase; Provisional. Length = 221 Score = 37.1 bits (87), Expect = 0.008 Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 9/57 (15%) Query: 280 IRQRVGPKIAIIGTGGISSTKDALDKIMAGANLIQLYSAMIYEGISLPKRIIQGLSD 336 +R+ VGP++ + +GGI + +DAL I AGA + G S I++GL Sbjct: 172 MRETVGPRVGVKASGGIRTLEDALAMIEAGATRL---------GTSAGVAILKGLEK 219 >gnl|CDD|183033 PRK11197, lldD, L-lactate dehydrogenase; Provisional. Length = 381 Score = 33.5 bits (77), Expect = 0.10 Identities = 27/84 (32%), Positives = 35/84 (41%), Gaps = 17/84 (20%) Query: 238 EGIIVSNTTLSRKGVQCSDNHEQDGGLSGSPLFLKSTIALAKIRQRVGPKIAIIGTGGIS 297 +GI+VSN G Q DG LS S AL I V I I+ GI Sbjct: 268 DGIVVSN----HGGRQL------DGVLS-------SARALPAIADAVKGDITILADSGIR 310 Query: 298 STKDALDKIMAGANLIQLYSAMIY 321 + D + I GA+ + L A +Y Sbjct: 311 NGLDVVRMIALGADTVLLGRAFVY 334 >gnl|CDD|161723 TIGR00126, deoC, deoxyribose-phosphate aldolase. Deoxyribose-phosphate aldolase is involved in the catabolism of nucleotides and deoxyriibonucleotides. The catalytic process is as follows: 2-deoxy-D-ribose 5-phosphate = D-glyceraldehyde 3-phosphate + acetaldehyde. It is found in both gram-postive and gram-negative bacteria. Length = 211 Score = 32.8 bits (75), Expect = 0.15 Identities = 13/34 (38%), Positives = 21/34 (61%) Query: 280 IRQRVGPKIAIIGTGGISSTKDALDKIMAGANLI 313 +R VG I + +GG+ + +DA+ I AGA+ I Sbjct: 168 MRNTVGDTIGVKASGGVRTAEDAIAMIEAGASRI 201 >gnl|CDD|179108 PRK00748, PRK00748, 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Validated. Length = 233 Score = 30.0 bits (69), Expect = 1.0 Identities = 30/107 (28%), Positives = 43/107 (40%), Gaps = 28/107 (26%) Query: 221 SEEELDDIAVEVLSHKVEGIIVSNTTLSRKGVQCSDNHEQDGGLSGSPLFLKSTIALAKI 280 S +D+A V+ II T +SR DG LSG + A ++ Sbjct: 144 SGVTAEDLAKRFEDAGVKAIIY--TDISR-----------DGTLSGP-----NVEATREL 185 Query: 281 RQRVGPKIAIIGTGGISSTKDALDKIMAGANLIQLYSAMI----YEG 323 V I +I +GG+SS LD I A L + ++ YEG Sbjct: 186 AAAVP--IPVIASGGVSS----LDDIKALKGLGAVEGVIVGRALYEG 226 >gnl|CDD|161817 TIGR00321, dhys, deoxyhypusine synthase. This family of apparent orthologs has an unusual UPGMA difference tree, in which the members from the archaea M. jannaschii and P. horikoshii cluster with the known eukaryotic deoxyhypusine synthases. Separated by a fairly deep branch, although still strongly related, is a small cluster of proteins from Methanobacterium thermoautotrophicum and Archeoglobus fulgidus, the latter of which has two. Length = 301 Score = 28.5 bits (64), Expect = 2.9 Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 17/61 (27%) Query: 223 EELDDIAVEVLSHKVEGIIV----------SNTTLSRKG----VQCSDNHEQDGGLSGSP 268 +L+DI + + G+I+ N L R+G VQ + + QDG LSG+P Sbjct: 209 RKLNDIVF---NSERTGVIILGGGLPKHFILNACLLREGADYAVQITTDQPQDGSLSGAP 265 Query: 269 L 269 L Sbjct: 266 L 266 >gnl|CDD|180081 PRK05437, PRK05437, isopentenyl pyrophosphate isomerase; Provisional. Length = 352 Score = 28.6 bits (65), Expect = 2.9 Identities = 13/53 (24%), Positives = 24/53 (45%), Gaps = 10/53 (18%) Query: 275 IALAKIRQRVGPKIAIIGTGGISSTKDALDKIMAGANLIQLYSAMIYEGISLP 327 +L + R + P + II +GGI + D + GA+ + G++ P Sbjct: 250 QSLLEARS-LLPDLPIIASGGIRNGLDIAKALALGADAV---------GMAGP 292 >gnl|CDD|178373 PLN02774, PLN02774, brassinosteroid-6-oxidase. Length = 463 Score = 27.4 bits (61), Expect = 5.4 Identities = 21/92 (22%), Positives = 41/92 (44%), Gaps = 6/92 (6%) Query: 160 FFT-IASYFTINISSPNTPGLRSLQKKKNLERLLIHVMQTREEEKIKTGKFVPIFLKISP 218 FF + ++ I P T +Q +KN+ R+L ++Q R + ++ Sbjct: 196 FFKLVLGTLSLPIDLPGTNYRSGVQARKNIVRMLRQLIQERRASGETHTDMLGYLMRKEG 255 Query: 219 D---LSEEELDDIAVEVLSHKVEGIIVSNTTL 247 + L++EE+ D + +L E VS T++ Sbjct: 256 NRYKLTDEEIIDQIITILYSGYE--TVSTTSM 285 >gnl|CDD|183866 PRK13125, trpA, tryptophan synthase subunit alpha; Provisional. Length = 244 Score = 27.3 bits (61), Expect = 5.5 Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 11/77 (14%) Query: 268 PLFLKSTIALAKIRQRVGPKIAIIGTGGISSTKDALDKIMAGANLIQLYSAMIY------ 321 P+ ++ I ++R VG K ++G G + S +DA D + AGA+ + + +A I Sbjct: 169 PVSVERNIK--RVRNLVGNKYLVVGFG-LDSPEDARDALSAGADGVVVGTAFIEELEKNG 225 Query: 322 --EGISLPKRIIQGLSD 336 ++L K+I L + Sbjct: 226 VESALNLLKKIRGALDE 242 >gnl|CDD|181326 PRK08255, PRK08255, salicylyl-CoA 5-hydroxylase; Reviewed. Length = 765 Score = 27.2 bits (61), Expect = 6.0 Identities = 15/38 (39%), Positives = 17/38 (44%), Gaps = 3/38 (7%) Query: 279 KIRQRVGPKIAIIGTGGISSTKDALDKIMAG-ANLIQL 315 +IR G IA I G IS I AG A+L L Sbjct: 681 RIRNEAG--IATIAVGAISEADHVNSIIAAGRADLCAL 716 >gnl|CDD|168156 PRK05656, PRK05656, acetyl-CoA acetyltransferase; Provisional. Length = 393 Score = 27.2 bits (60), Expect = 6.6 Identities = 18/42 (42%), Positives = 24/42 (57%), Gaps = 4/42 (9%) Query: 276 ALAKIR--QRVGPKIAIIGTGGISSTKDALDKIMAGANLIQL 315 LAKI G AI+G G +S+T+ LDK AG +L +L Sbjct: 272 VLAKIAAYANAGVDPAIMGIGPVSATRRCLDK--AGWSLAEL 311 >gnl|CDD|128902 smart00654, eIF6, translation initiation factor 6. Length = 200 Score = 27.2 bits (61), Expect = 6.8 Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 6/42 (14%) Query: 216 ISPDLSEEELDDIA----VEVLSHKVEGIIV--SNTTLSRKG 251 SPDLS+E + I+ VEV + G I S ++ KG Sbjct: 113 ASPDLSKETEEIISDVLGVEVFRGTIAGNITVGSYCVVTNKG 154 >gnl|CDD|162224 TIGR01143, murF, UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase. This family consists of the strictly bacterial MurF gene of peptidoglycan biosynthesis. This enzyme is almost always UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanyl ligase, but in a few species, MurE adds lysine rather than diaminopimelate. This enzyme acts on the product from MurE activity, and so is also subfamily rather than equivalog. Staphylococcus aureus is an example of species in this MurF protein would differ. Length = 417 Score = 27.2 bits (61), Expect = 7.1 Identities = 11/29 (37%), Positives = 17/29 (58%) Query: 275 IALAKIRQRVGPKIAIIGTGGISSTKDAL 303 +A AK + G I I G+ G ++TK+ L Sbjct: 64 LASAKRAKFSGKVIGITGSSGKTTTKEML 92 >gnl|CDD|162403 TIGR01531, glyc_debranch, glycogen debranching enzymye. glycogen debranching enzyme possesses two different catalytic activities; oligo-1,4-->1,4-glucantransferase (EC 2.4.1.25) and amylo-1,6-glucosidase (EC 3.2.1.33). Site directed mutagenesis studies in S. cerevisiae indicate that the transferase and glucosidase activities are independent and located in different regions of the polypeptide chain. Proteins in this model belong to the larger alpha-amylase family. The model covers eukaryotic proteins with a seed composed of human, nematode and yeast sequences. Yeast seed sequence is well characterized. The model is quite rigorous; either query sequence yields large bit score or it fails to hit the model altogether. There doesn't appear to be any middle ground. Length = 1464 Score = 27.1 bits (60), Expect = 7.2 Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 5/50 (10%) Query: 118 AGYHTVFSRLSKIQPTSPIGINLGANKDSKDFILDYVSGIRLFFTIASYF 167 G + S L KI+P + +G L N ++LDY+S RL SY Sbjct: 884 CGLQGLVSVLRKIRPKNDLGHPLCNNLRDGHWMLDYISS-RL----NSYS 928 >gnl|CDD|178686 PLN03141, PLN03141, 3-epi-6-deoxocathasterone 23-monooxygenase; Provisional. Length = 452 Score = 27.0 bits (60), Expect = 7.3 Identities = 11/46 (23%), Positives = 21/46 (45%) Query: 163 IASYFTINISSPNTPGLRSLQKKKNLERLLIHVMQTREEEKIKTGK 208 I ++ I P T RSLQ KK + +L+ +++ + + Sbjct: 181 IKGLMSLPIKLPGTRLYRSLQAKKRMVKLVKKIIEEKRRAMKNKEE 226 >gnl|CDD|177992 PLN02363, PLN02363, phosphoribosylanthranilate isomerase. Length = 256 Score = 27.1 bits (60), Expect = 7.6 Identities = 9/19 (47%), Positives = 13/19 (68%) Query: 295 GISSTKDALDKIMAGANLI 313 GI+S +DA + AGA+ I Sbjct: 53 GITSARDAAMAVEAGADFI 71 >gnl|CDD|184032 PRK13402, PRK13402, gamma-glutamyl kinase; Provisional. Length = 368 Score = 26.9 bits (60), Expect = 7.6 Identities = 20/83 (24%), Positives = 32/83 (38%), Gaps = 15/83 (18%) Query: 233 LSHKVEGIIVSNTTLSRKGVQCSDNHEQDGGLSGSP-------LFLKSTIALAKIRQRVG 285 LS V + ++T + SD DG +P L + T A+I G Sbjct: 152 LSAMVAALADADTL-----IILSD---IDGLYDQNPRTNPDAKLIKQVTEINAEIYAMAG 203 Query: 286 PKIAIIGTGGISSTKDALDKIMA 308 + +GTGG+ + A M+ Sbjct: 204 GAGSNVGTGGMRTKIQAAKIAMS 226 >gnl|CDD|162088 TIGR00884, guaA_Cterm, GMP synthase (glutamine-hydrolyzing), C-terminal domain or B subunit. This protein of purine de novo biosynthesis is well-conserved. However, it appears to split into two separate polypeptide chains in most of the Archaea. This C-terminal region would be the larger subunit. Length = 311 Score = 26.9 bits (60), Expect = 8.4 Identities = 10/25 (40%), Positives = 17/25 (68%), Gaps = 1/25 (4%) Query: 276 ALAKIRQRVGPKIAIIG-TGGISST 299 A+ +IR++VG II +GG+ S+ Sbjct: 6 AVEEIREQVGDAKVIIALSGGVDSS 30 >gnl|CDD|184343 PRK13813, PRK13813, orotidine 5'-phosphate decarboxylase; Provisional. Length = 215 Score = 26.9 bits (60), Expect = 9.4 Identities = 13/37 (35%), Positives = 20/37 (54%) Query: 277 LAKIRQRVGPKIAIIGTGGISSTKDALDKIMAGANLI 313 + IR R+G ++ II G + A D I AGA+ + Sbjct: 153 VRYIRSRLGDELKIISPGIGAQGGKAADAIKAGADYV 189 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.318 0.137 0.388 Gapped Lambda K H 0.267 0.0752 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 5,982,473 Number of extensions: 399115 Number of successful extensions: 950 Number of sequences better than 10.0: 1 Number of HSP's gapped: 935 Number of HSP's successfully gapped: 45 Length of query: 362 Length of database: 5,994,473 Length adjustment: 95 Effective length of query: 267 Effective length of database: 3,941,713 Effective search space: 1052437371 Effective search space used: 1052437371 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: 58 (26.1 bits)