RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780676|ref|YP_003065089.1| lipoyl synthase [Candidatus
Liberibacter asiaticus str. psy62]
(329 letters)
>gnl|CDD|180115 PRK05481, PRK05481, lipoyl synthase; Provisional.
Length = 289
Score = 558 bits (1440), Expect = e-159
Identities = 175/283 (61%), Positives = 204/283 (72%)
Query: 40 KPDWIRVRAPVSSGYKETYNILRSRNLTTVCEEAGCPNIGECWNKNHATFMILGAICTRA 99
KPDW+RV+ P Y E +LR L TVCEEA CPNIGECW++ ATFMILG ICTR
Sbjct: 7 KPDWLRVKLPTGEEYTEIKKLLRELGLHTVCEEASCPNIGECWSRGTATFMILGDICTRR 66
Query: 100 CTFCNVATGKPQPLDPQEPENISWAVRSMKLSHVVITSVDRDDLDDGGAQHFAEVISAIR 159
C FC+VATG+P PLDP EPE ++ AV M L +VVITSVDRDDL DGGAQHFAE I AIR
Sbjct: 67 CPFCDVATGRPLPLDPDEPERVAEAVARMGLKYVVITSVDRDDLPDGGAQHFAETIRAIR 126
Query: 160 ESAPSTTIEVLTPDFLRKPHALEKVVSAKPDVFNHNLETVASNYLMVRPGARYFHSLRLL 219
E P TTIEVL PDF + AL V+ A+PDVFNHNLETV Y VRPGA Y SL LL
Sbjct: 127 ELNPGTTIEVLIPDFRGRMDALLTVLDARPDVFNHNLETVPRLYKRVRPGADYERSLELL 186
Query: 220 QRVKELDPLIFTKSGIMLGLGETRNEILQLMDDLRTADVDFLTMGQYLQPTRKHHKVESF 279
+R KEL P I TKSG+M+GLGET E+L++MDDLR A VD LT+GQYLQP+RKH VE +
Sbjct: 187 KRAKELHPGIPTKSGLMVGLGETDEEVLEVMDDLRAAGVDILTIGQYLQPSRKHLPVERY 246
Query: 280 VTPQDFKSYETIAYSKGFLMVSASPLTRSSYHAGDDFLRLKNN 322
VTP++F Y+ IA GFL V++ PL RSSYHA + +
Sbjct: 247 VTPEEFDEYKEIALELGFLHVASGPLVRSSYHADEQAAGAEVA 289
>gnl|CDD|183830 PRK12928, PRK12928, lipoyl synthase; Provisional.
Length = 290
Score = 446 bits (1150), Expect = e-126
Identities = 146/292 (50%), Positives = 190/292 (65%), Gaps = 3/292 (1%)
Query: 25 RHPEKIHKPDTEKMQKPDWIRVRAPVSSGYKETYNILRSRNLTTVCEEAGCPNIGECWNK 84
R +K + E+ P+W+R +S + +++ R L T+CEEA CPN GEC+ +
Sbjct: 1 RSRDKSARIPVER--LPEWLRAPIGKASELETVQRLVKQRRLHTICEEARCPNRGECYAQ 58
Query: 85 NHATFMILGAICTRACTFCNVATGKPQPLDPQEPENISWAVRSMKLSHVVITSVDRDDLD 144
ATF+I+G+ICTR C FC V G+P PLDP EPE ++ AV ++ L +VV+TSV RDDL
Sbjct: 59 GTATFLIMGSICTRRCAFCQVDKGRPMPLDPDEPERVAEAVAALGLRYVVLTSVARDDLP 118
Query: 145 DGGAQHFAEVISAIRESAPSTTIEVLTPDFL-RKPHALEKVVSAKPDVFNHNLETVASNY 203
DGGA HF I+AIR P T IEVLTPDF + L V++AKPDVFNHNLETV
Sbjct: 119 DGGAAHFVATIAAIRARNPGTGIEVLTPDFWGGQRERLATVLAAKPDVFNHNLETVPRLQ 178
Query: 204 LMVRPGARYFHSLRLLQRVKELDPLIFTKSGIMLGLGETRNEILQLMDDLRTADVDFLTM 263
VR GA Y SL LL R KEL P I TKSG+MLGLGET +E+++ + DLR D LT+
Sbjct: 179 KAVRRGADYQRSLDLLARAKELAPDIPTKSGLMLGLGETEDEVIETLRDLRAVGCDRLTI 238
Query: 264 GQYLQPTRKHHKVESFVTPQDFKSYETIAYSKGFLMVSASPLTRSSYHAGDD 315
GQYL+P+ H V+ + TP++F++ IA GF V + PL RSSYHAG+
Sbjct: 239 GQYLRPSLAHLPVQRYWTPEEFEALGQIARELGFSHVRSGPLVRSSYHAGEQ 290
>gnl|CDD|161907 TIGR00510, lipA, lipoate synthase. The family shows strong
sequence conservation.
Length = 302
Score = 346 bits (888), Expect = 6e-96
Identities = 146/289 (50%), Positives = 192/289 (66%), Gaps = 4/289 (1%)
Query: 32 KPDTEK---MQKPDWIRVRAPVSSGYKETYNILRSRNLTTVCEEAGCPNIGECWNKNHAT 88
P K ++KP+W++++ P+ + + N ++++ L TVCEEA CPN+ ECWN AT
Sbjct: 6 NPIPNKEILLRKPEWLKIKLPLGTVIAQIKNTMKNKGLHTVCEEASCPNLTECWNHGTAT 65
Query: 89 FMILGAICTRACTFCNVATG-KPQPLDPQEPENISWAVRSMKLSHVVITSVDRDDLDDGG 147
FMILG ICTR C FC+VA G P P DP+EP ++ ++ M L +VVITSVDRDDL+DGG
Sbjct: 66 FMILGDICTRRCPFCDVAHGRNPLPPDPEEPAKLAETIKDMGLKYVVITSVDRDDLEDGG 125
Query: 148 AQHFAEVISAIRESAPSTTIEVLTPDFLRKPHALEKVVSAKPDVFNHNLETVASNYLMVR 207
A H AE I AIRE P+ IE L PDF AL+ ++ A PDV+NHNLETV VR
Sbjct: 126 ASHLAECIEAIREKLPNIKIETLVPDFRGNIAALDILLDAPPDVYNHNLETVERLTPFVR 185
Query: 208 PGARYFHSLRLLQRVKELDPLIFTKSGIMLGLGETRNEILQLMDDLRTADVDFLTMGQYL 267
PGA Y SL+LL+R KE P + TKSGIM+GLGET EI Q + DLR V +T+GQYL
Sbjct: 186 PGATYRWSLKLLERAKEYLPNLPTKSGIMVGLGETNEEIKQTLKDLRDHGVTMVTLGQYL 245
Query: 268 QPTRKHHKVESFVTPQDFKSYETIAYSKGFLMVSASPLTRSSYHAGDDF 316
+P+R+H V+ +V+P++F Y ++A GFL + P RSSYHA F
Sbjct: 246 RPSRRHLPVKRYVSPEEFDYYRSVALEMGFLHAACGPFVRSSYHADSLF 294
>gnl|CDD|178048 PLN02428, PLN02428, lipoic acid synthase.
Length = 349
Score = 331 bits (850), Expect = 2e-91
Identities = 141/294 (47%), Positives = 184/294 (62%), Gaps = 9/294 (3%)
Query: 40 KPDWIRVRAPVSSGYKETYNILRSRNLTTVCEEAGCPNIGECWNKNH-----ATFMILGA 94
KP W+R RAP Y E LR L TVCEEA CPNIGECWN AT MILG
Sbjct: 51 KPKWLRQRAPGGEKYTEIKEKLRELKLNTVCEEAQCPNIGECWNGGGTGTATATIMILGD 110
Query: 95 ICTRACTFCNVATGK-PQPLDPQEPENISWAVRSMKLSHVVITSVDRDDLDDGGAQHFAE 153
CTR C FC V T + P P DP EPEN++ A+ S + +VV+TSVDRDDL DGG+ HFAE
Sbjct: 111 TCTRGCRFCAVKTSRTPPPPDPDEPENVAEAIASWGVDYVVLTSVDRDDLPDGGSGHFAE 170
Query: 154 VISAIRESAPSTTIEVLTPDFLRKPHALEKVVSAKPDVFNHNLETVASNYLMVR-PGARY 212
+ +++ P +E L PDF A+E V ++ DVF HN+ETV +VR P A Y
Sbjct: 171 TVRRLKQLKPEILVEALVPDFRGDLGAVETVATSGLDVFAHNIETVERLQRIVRDPRAGY 230
Query: 213 FHSLRLLQRVKELDPLIFTKSGIMLGLGETRNEILQLMDDLRTADVDFLTMGQYLQPTRK 272
SL +L+ KE P + TK+ IMLGLGET E++Q M+DLR A VD +T GQYL+PT++
Sbjct: 231 KQSLDVLKHAKESKPGLLTKTSIMLGLGETDEEVVQTMEDLRAAGVDVVTFGQYLRPTKR 290
Query: 273 HHKVESFVTPQDFKSYETIAYSKGFLMVSASPLTRSSYHAGDDFLR--LKNNRR 324
H V+ +VTP+ F+ + GF V++ PL RSSY AG+ F++ ++ +R
Sbjct: 291 HLPVKEYVTPEKFEFWREYGEEMGFRYVASGPLVRSSYKAGEFFIKSMIREDRA 344
>gnl|CDD|173603 PTZ00413, PTZ00413, lipoate synthase; Provisional.
Length = 398
Score = 300 bits (769), Expect = 4e-82
Identities = 131/305 (42%), Positives = 180/305 (59%), Gaps = 14/305 (4%)
Query: 36 EKMQKPDWIRVRAPVSSGYKETYNIL----RSRNLTTVCEEAGCPNIGECWN------KN 85
+ P W +V+ P + + +N + R + L TVCEEA CPNIGECW
Sbjct: 89 GEEPLPPWFKVKVPKGASRRPRFNRIRRSMREKKLHTVCEEAKCPNIGECWGGGDEEGTA 148
Query: 86 HATFMILGAICTRACTFCNVATG-KPQPLDPQEPENISWAVRSMKLSHVVITSVDRDDLD 144
AT M++G CTR C FC+V T KP PLDP EPE ++ AV M + ++V+T VDRDDL
Sbjct: 149 TATIMVMGDHCTRGCRFCSVKTSRKPPPLDPNEPEKVAKAVAEMGVDYIVMTMVDRDDLP 208
Query: 145 DGGAQHFAEVISAIRESAPSTTIEVLTPDFLRKPHALEKVVSAKPDVFNHNLETVASNYL 204
DGGA H A + I+ES P +E L DF ++EK+ ++ V+ HN+E V
Sbjct: 209 DGGASHVARCVELIKESNPELLLEALVGDFHGDLKSVEKLANSPLSVYAHNIECVERITP 268
Query: 205 MVRPG-ARYFHSLRLLQRVKEL-DPLIFTKSGIMLGLGETRNEILQLMDDLRTADVDFLT 262
VR A Y SL++L+ VKE + + TKS IMLGLGET E+ Q + DLRTA V +T
Sbjct: 269 YVRDRRASYRQSLKVLEHVKEFTNGAMLTKSSIMLGLGETEEEVRQTLRDLRTAGVSAVT 328
Query: 263 MGQYLQPTRKHHKVESFVTPQDFKSYETIAYSKGFLMVSASPLTRSSYHAGDDFLR-LKN 321
+GQYLQPT+ KV + P++F+ +E A GFL ++ PL RSSY AG+ +++ L
Sbjct: 329 LGQYLQPTKTRLKVSRYAHPKEFEMWEEEAMKMGFLYCASGPLVRSSYRAGEYYIKNLVK 388
Query: 322 NRRQH 326
RR+
Sbjct: 389 QRRKA 393
>gnl|CDD|128968 smart00729, Elp3, Elongator protein 3, MiaB family, Radical SAM.
This superfamily contains MoaA, NifB, PqqE,
coproporphyrinogen III oxidase, biotin synthase and MiaB
families, and includes a representative in the
eukaryotic elongator subunit, Elp-3. Some members of the
family are methyltransferases.
Length = 216
Score = 65.9 bits (161), Expect = 1e-11
Identities = 39/195 (20%), Positives = 73/195 (37%), Gaps = 20/195 (10%)
Query: 86 HATFMILGAICTRACTFC--NVATGKPQPLDPQEPEN-----ISWAVRSMKLSHVVITSV 138
I+ C R CTFC A GK + + + + + V I
Sbjct: 1 PLALYIITRGCPRRCTFCSFPSARGKLRSRYLEALVREIELLAEKGEKEILVGTVFIGGG 60
Query: 139 DRDDLDDGGAQHFAEVISAIRESAP-----STTIEVLTPDFLRKPHALEKVVSAKPDVFN 193
L + E++ AIRE TIE P L + LE + A + +
Sbjct: 61 TPTLLSP---EQLEELLEAIREILGLADDVEITIET-RPGTLTEEL-LEALKEAGVNRVS 115
Query: 194 HNLETVASNYL-MVRPGARYFHSLRLLQRVKELDPLIFTKSGIMLGL-GETRNEILQLMD 251
+++ + L + G L +++++E P I + +++GL GET + + +
Sbjct: 116 LGVQSGSDEVLKAINRGHTVEDVLEAVEKLREAGP-IKVSTDLIVGLPGETEEDFEETLK 174
Query: 252 DLRTADVDFLTMGQY 266
L+ D +++
Sbjct: 175 LLKELGPDRVSIFPL 189
>gnl|CDD|161876 TIGR00433, bioB, biotin synthetase. Catalyzes the last step of the
biotin biosynthesis pathway.
Length = 296
Score = 45.9 bits (109), Expect = 1e-05
Identities = 25/109 (22%), Positives = 44/109 (40%), Gaps = 2/109 (1%)
Query: 151 FAEVISAIRESAPSTTIEVLTPDFLRKPHALEKVVSAKPDVFNHNLETVASNYLMVRPGA 210
F E + A+ + ++ L P +++ A D +NHNL+T Y +
Sbjct: 96 FMEYVEAMVQIVEEMGLKTCATLGLLDPEQAKRLKDAGLDYYNHNLDTSQEFYSNIISTH 155
Query: 211 RYFHSLRLLQRVKELDPLIFTKSGIMLGLGETRNEILQLMDDLRTADVD 259
Y + L+ K+ + SG + GLGET + + L L +
Sbjct: 156 TYDDRVDTLENAKKAG--LKVCSGGIFGLGETVEDRIGLALALANLPPE 202
>gnl|CDD|180492 PRK06256, PRK06256, biotin synthase; Validated.
Length = 336
Score = 44.0 bits (105), Expect = 5e-05
Identities = 29/117 (24%), Positives = 52/117 (44%), Gaps = 18/117 (15%)
Query: 151 FAEVISAIRESAPSTTIEV------LTPDFLRKPHALEKVVSAKPDVFNHNLETVASNYL 204
+V+ A++ T +E+ LT + E++ A D +NHNLET S +
Sbjct: 125 VDQVVEAVKAIKEETDLEICACLGLLTEE------QAERLKEAGVDRYNHNLETSRSYFP 178
Query: 205 MVRPGARYFHSLRLLQRVKE--LDPLIFTKSGIMLGLGETRNEILQLMDDLRTADVD 259
V Y + + VK ++P SG ++G+GE+ + ++ L+ D D
Sbjct: 179 NVVTTHTYEDRIDTCEMVKAAGIEPC----SGGIIGMGESLEDRVEHAFFLKELDAD 231
>gnl|CDD|131404 TIGR02351, thiH, thiazole biosynthesis protein ThiH. Members this
protein family are the ThiH protein of thiamine
biosynthesis, a homolog of the BioB protein of biotin
biosynthesis. Genes for the this protein generally are
found in operons with other thiamin biosynthesis genes.
Length = 366
Score = 32.3 bits (74), Expect = 0.16
Identities = 19/83 (22%), Positives = 36/83 (43%), Gaps = 5/83 (6%)
Query: 90 MILGAICTRACTFCNVATG---KPQPLDPQEPENISWAVRSMKLSHVVITSVDRDDLDDG 146
+ L C+ C +C + K + L+ +E E A++ +++ + + +
Sbjct: 77 LYLSNYCSNKCVYCGFSMSNKIKRKKLNEEEIEREIEAIKKSGFKEILLVTGESEKA--A 134
Query: 147 GAQHFAEVISAIRESAPSTTIEV 169
G ++ AE I RE S IEV
Sbjct: 135 GVEYIAEAIKLAREYFSSLAIEV 157
>gnl|CDD|185063 PRK15108, PRK15108, biotin synthase; Provisional.
Length = 345
Score = 30.9 bits (70), Expect = 0.41
Identities = 20/61 (32%), Positives = 33/61 (54%), Gaps = 2/61 (3%)
Query: 182 EKVVSAKPDVFNHNLETVASNYLMVRPGARYFHSLRLLQRVKELDPLIFTKSGIMLGLGE 241
+++ +A D +NHNL+T Y + Y L L++V++ I SG ++GLGE
Sbjct: 140 QRLANAGLDYYNHNLDTSPEFYGNIITTRTYQERLDTLEKVRDAG--IKVCSGGIVGLGE 197
Query: 242 T 242
T
Sbjct: 198 T 198
>gnl|CDD|150764 pfam10127, Nuc-transf, Predicted nucleotidyltransferase. Members
of this family of bacterial proteins catalyze the
transfer of nucleotide residues from nucleoside
diphosphates or triphosphates into dimer or polymer
forms.
Length = 247
Score = 31.1 bits (71), Expect = 0.44
Identities = 16/100 (16%), Positives = 34/100 (34%), Gaps = 17/100 (17%)
Query: 175 LRKPHALEKVVSAKPDVFN------HNLETVASNY-LMVRPGA----RYFHSLRLLQRVK 223
L ++++ + F+ H L + ++ +YF+ LR L +
Sbjct: 103 REDVDFLGELLALAREAFSSRRLIHHYLGMARKQFRKYLKGETVRLKKYFYVLRPLLAGR 162
Query: 224 ELD------PLIFTKSGIMLGLGETRNEILQLMDDLRTAD 257
+ P+ F + G EI +L+ R +
Sbjct: 163 WILRTGTPPPMEFQVLLAGVLDGSLLAEIDELLARKRGGE 202
>gnl|CDD|178013 PLN02389, PLN02389, biotin synthase.
Length = 379
Score = 29.0 bits (65), Expect = 1.5
Identities = 22/64 (34%), Positives = 31/64 (48%), Gaps = 2/64 (3%)
Query: 192 FNHNLETVASNYLMVRPGARYFHSLRLLQRVKELDPLIFTKSGIMLGLGETRNEILQLMD 251
+NHNL+T Y V Y L L+ V+E I SG ++GLGE + + L+
Sbjct: 192 YNHNLDTSREYYPNVITTRSYDDRLETLEAVREAG--ISVCSGGIIGLGEAEEDRVGLLH 249
Query: 252 DLRT 255
L T
Sbjct: 250 TLAT 253
>gnl|CDD|178787 PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed.
Length = 309
Score = 28.9 bits (66), Expect = 1.9
Identities = 12/37 (32%), Positives = 19/37 (51%)
Query: 156 SAIRESAPSTTIEVLTPDFLRKPHALEKVVSAKPDVF 192
S +++ A I VL P+ LR P L ++ + DV
Sbjct: 46 SPVKQLALEHGIPVLQPEKLRDPEFLAELAALNADVI 82
>gnl|CDD|172816 PRK14340, PRK14340, (dimethylallyl)adenosine tRNA
methylthiotransferase; Provisional.
Length = 445
Score = 28.6 bits (64), Expect = 2.1
Identities = 27/131 (20%), Positives = 48/131 (36%), Gaps = 11/131 (8%)
Query: 144 DDGGAQHFAEVISAIRESAPSTTIEVLTPDFLRKPHALEKVVSAKPDVFNHNLETVASN- 202
D FA ++ A+ +AP I T +L + ++A+P++ NH V S
Sbjct: 210 DPEAGADFAGLLDAVSRAAPEMRIRFTTSHPKDISESLVRTIAARPNICNHIHLPVQSGS 269
Query: 203 ----YLMVRPGAR--YFHSLRLLQRVKELDPLIFTKSGIMLGL-GETRNEILQLMDDLRT 255
M R Y + L+ + P + + ++ G GET + + +
Sbjct: 270 SRMLRRMNRGHTIEEYLEKIALI---RSAIPGVTLSTDLIAGFCGETEEDHRATLSLMEE 326
Query: 256 ADVDFLTMGQY 266
D M Y
Sbjct: 327 VRFDSAFMFYY 337
>gnl|CDD|178137 PLN02522, PLN02522, ATP citrate (pro-S)-lyase.
Length = 608
Score = 28.6 bits (64), Expect = 2.3
Identities = 13/37 (35%), Positives = 23/37 (62%), Gaps = 4/37 (10%)
Query: 110 PQPLDPQEPENISWAVRSMKL---SHVVIT-SVDRDD 142
+ PQ PE+++ A++S K+ +H+V T S DR +
Sbjct: 327 KEVTPPQIPEDLNSAIKSGKVRAPTHIVSTISDDRGE 363
>gnl|CDD|119145 pfam10625, UspB, Universal stress protein B (UspB). UspB in
Escherichia coli is a 14kDa protein which is predicted
to be an integral membrane protein. Overexpression of
UspB results in cell death in stationary phase, and
mutants of uspB are sensitive to ethanol exposure during
stationary phase.
Length = 107
Score = 28.5 bits (64), Expect = 2.8
Identities = 12/22 (54%), Positives = 16/22 (72%), Gaps = 1/22 (4%)
Query: 210 ARYFHSLR-LLQRVKELDPLIF 230
ARY SLR LL ++E DPL++
Sbjct: 20 ARYVSSLRALLYIMREADPLLY 41
>gnl|CDD|182106 PRK09841, PRK09841, cryptic autophosphorylating protein tyrosine
kinase Etk; Provisional.
Length = 726
Score = 28.0 bits (62), Expect = 4.1
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 8/46 (17%)
Query: 189 PDVFNHNLETVASNYL---MVRPGARYFHSLRLLQR-----VKELD 226
P + L ++A+NYL + R A+ SL LQR ELD
Sbjct: 239 PQLITRILNSIANNYLQQNIARQAAQDSQSLEFLQRQLPEVRSELD 284
>gnl|CDD|183473 PRK12361, PRK12361, hypothetical protein; Provisional.
Length = 547
Score = 27.7 bits (62), Expect = 4.6
Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 17 ATPNAERLRHPEKIHKPDTEKMQKPDWIRVRAPVSSGYK 55
A N +LR EK+ + + K W+ PVS G K
Sbjct: 220 ARLNKRQLRALEKMLEQGKLNIHKRAWLIAN-PVSGGGK 257
>gnl|CDD|181715 PRK09234, fbiC, FO synthase; Reviewed.
Length = 843
Score = 27.3 bits (61), Expect = 5.2
Identities = 22/68 (32%), Positives = 33/68 (48%), Gaps = 13/68 (19%)
Query: 196 LETVASNYLMVRPGARYFHS--------LRLLQRVKELD-PLIFTKSGIMLGLGETRNEI 246
LET S L G ++ S LR+L+ L P FT +GI++G+GET E
Sbjct: 194 LETT-SRRLFEEKGGPHYGSPDKDPAVRLRVLEDAGRLSVP--FT-TGILIGIGETLAER 249
Query: 247 LQLMDDLR 254
+ + +R
Sbjct: 250 AESLFAIR 257
>gnl|CDD|130372 TIGR01305, GMP_reduct_1, guanosine monophosphate reductase,
eukaryotic. A deep split separates two families of GMP
reductase. This family includes both eukaryotic and some
proteobacterial sequences, while the other family
contains other bacterial sequences.
Length = 343
Score = 27.2 bits (60), Expect = 6.5
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 142 DLDDGGAQHFAEVISAIRESAPSTTI 167
D+ +G ++HF E + +RE+ P TI
Sbjct: 128 DVANGYSEHFVEFVKLVREAFPEHTI 153
>gnl|CDD|149590 pfam08591, RNR_inhib, Ribonucleotide reductase inhibitor. This
family includes S. pombe Spd1. Spd1p inhibits fission
yeast RNR activity by interacting with the Cdc22p.
Length = 96
Score = 27.1 bits (60), Expect = 6.7
Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 2/38 (5%)
Query: 45 RVRAPVSSGYK--ETYNILRSRNLTTVCEEAGCPNIGE 80
R+R V+ GYK Y+ R+ + T+ + A N G
Sbjct: 9 RIRKSVAEGYKTGNKYSAFRAPSTTSTSDPARGVNDGT 46
>gnl|CDD|129517 TIGR00423, TIGR00423, radical SAM domain protein, CofH subfamily.
This protein family includes the CofH protein of
coenzyme F(420) biosynthesis from Methanocaldococcus
jannaschii, but appears to hit genomes more broadly than
just the subset that make coenzyme F(420), so that
narrower group is being built as a separate family.
Length = 309
Score = 27.0 bits (60), Expect = 6.9
Identities = 17/82 (20%), Positives = 27/82 (32%), Gaps = 7/82 (8%)
Query: 95 ICTRACTFC----NVATGKPQPLDPQEPENISWAVRSMKLSHVVITSVDRDDLDDGGAQH 150
IC C FC L +E + + V I LD ++
Sbjct: 14 ICVGKCKFCAFRAREKDKDAYVLSLEEILEKVKEAVAKGATEVCIQGGLNPQLD---IEY 70
Query: 151 FAEVISAIRESAPSTTIEVLTP 172
+ E+ AI++ P I +P
Sbjct: 71 YEELFRAIKQEFPDVHIHAFSP 92
>gnl|CDD|180835 PRK07094, PRK07094, biotin synthase; Provisional.
Length = 323
Score = 27.1 bits (61), Expect = 7.2
Identities = 21/66 (31%), Positives = 35/66 (53%), Gaps = 11/66 (16%)
Query: 207 RPGARYFHSLRLLQRVKELDPLIF-TKSGIMLGL-GETRNEILQLMDD---LRTADVDFL 261
PG + + + L+ +KEL + SG M+GL G+T E L DD L+ D+D +
Sbjct: 159 HPGMSFENRIACLKDLKELG---YEVGSGFMVGLPGQT-LED--LADDILFLKELDLDMI 212
Query: 262 TMGQYL 267
+G ++
Sbjct: 213 GIGPFI 218
>gnl|CDD|132589 TIGR03550, F420_cofG, 7,8-didemethyl-8-hydroxy-5-deazariboflavin
synthase, CofG subunit. This model represents either a
subunit or a domain, depending on whether or not the
genes are fused, of a bifunctional protein that
completes the synthesis of
7,8-didemethyl-8-hydroxy-5-deazariboflavin, or FO. FO is
the chromophore of coenzyme F(420), involved in
methanogenesis in methanogenic archaea but found in
certain other lineages as well. The chromophore also
occurs as a cofactor in DNA photolyases in
Cyanobacteria.
Length = 322
Score = 26.9 bits (60), Expect = 7.2
Identities = 11/25 (44%), Positives = 18/25 (72%), Gaps = 1/25 (4%)
Query: 230 FTKSGIMLGLGETRNEILQLMDDLR 254
FT +GI++G+GETR E + + +R
Sbjct: 165 FT-TGILIGIGETREERAESLLAIR 188
>gnl|CDD|181983 PRK09603, PRK09603, bifunctional DNA-directed RNA polymerase subunit
beta/beta'; Reviewed.
Length = 2890
Score = 26.8 bits (59), Expect = 7.4
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 38 MQKPDWIRVRAPVSSGYKETYNILRSRNLT 67
M KPD + P+ S +KE N+L N T
Sbjct: 2112 MTKPDGSIIETPIISNFKEGLNVLEYFNST 2141
>gnl|CDD|178698 PLN03153, PLN03153, hypothetical protein; Provisional.
Length = 537
Score = 26.8 bits (59), Expect = 7.6
Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 4/47 (8%)
Query: 189 PDVFNHNLETVASNYLMVRPGARYFHSLRLLQRVKELDPLIFTKSGI 235
P V H++E V Y PG SL+L R ++DP F + I
Sbjct: 335 PFVSIHHVEAVDPFY----PGLSSLDSLKLFTRAMKVDPRSFLQRSI 377
>gnl|CDD|185214 PRK15314, PRK15314, outer membrane protein RatB; Provisional.
Length = 2435
Score = 26.7 bits (58), Expect = 7.9
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 112 PLDPQEPENISWAVRSMKLSHVVITS 137
PLDPQ NIS+ +++ H+V+ S
Sbjct: 132 PLDPQPVSNISFCAQNLAGRHLVVWS 157
>gnl|CDD|179900 PRK04960, PRK04960, universal stress protein UspB; Provisional.
Length = 111
Score = 26.9 bits (60), Expect = 8.0
Identities = 12/22 (54%), Positives = 15/22 (68%), Gaps = 1/22 (4%)
Query: 210 ARYFHSLRLLQRV-KELDPLIF 230
ARYF SLR L V + DPL++
Sbjct: 20 ARYFSSLRALLVVLRGCDPLLY 41
>gnl|CDD|185557 PTZ00327, PTZ00327, eukaryotic translation initiation factor 2
gamma subunit; Provisional.
Length = 460
Score = 26.9 bits (60), Expect = 8.1
Identities = 21/79 (26%), Positives = 31/79 (39%), Gaps = 16/79 (20%)
Query: 70 CEEAGCPNIGECWN-KNHATF------------MILGAICTRACTFCNVATGKPQPLDPQ 116
+ CP G K H +F M+ GA +A + P PQ
Sbjct: 101 PDNPPCPGCGHKMTLKRHVSFVDCPGHDILMATMLNGA-AVMDAALLLIAANESCP-QPQ 158
Query: 117 EPENISWAVRSMKLSHVVI 135
E+++ AV MKL H++I
Sbjct: 159 TSEHLA-AVEIMKLKHIII 176
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
0.320 0.134 0.402
Gapped
Lambda K H
0.267 0.0747 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 5,450,522
Number of extensions: 343419
Number of successful extensions: 659
Number of sequences better than 10.0: 1
Number of HSP's gapped: 646
Number of HSP's successfully gapped: 38
Length of query: 329
Length of database: 5,994,473
Length adjustment: 94
Effective length of query: 235
Effective length of database: 3,963,321
Effective search space: 931380435
Effective search space used: 931380435
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (25.7 bits)