RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|255764472|ref|YP_003064841.2| 2-methylthioadenine synthetase
(miaB-like) protein [Candidatus Liberibacter asiaticus str. psy62]
(469 letters)
>gnl|CDD|30966 COG0621, MiaB, 2-methylthioadenine synthetase [Translation,
ribosomal structure and biogenesis].
Length = 437
Score = 502 bits (1294), Expect = e-143
Identities = 207/448 (46%), Positives = 300/448 (66%), Gaps = 18/448 (4%)
Query: 26 RFFVKSYGCQMNVYDSLRMEDMFFSQGYER-VNSMDDADLIVLNTCHIREKAAEKVYSFL 84
+ ++++ GCQMN+YDS RM + + GYE V ++AD++++NTC +REKA +KV S +
Sbjct: 4 KVYIETLGCQMNLYDSERMAGLLEAAGYEELVEDPEEADVVIINTCAVREKAEQKVRSAI 63
Query: 85 GRIRNLKNSRIKEGGDLLVVVAGCVAQAEGEEILRRSPIVNVVVGPQTYYRLPELLERAR 144
G ++ K D ++V GC+AQAE EEIL R+P V++V+GPQ RLPE +E+A
Sbjct: 64 GELK-------KLKPDAKIIVTGCLAQAE-EEILERAPEVDIVLGPQNKERLPEAIEKAL 115
Query: 145 FGK--RVVDTDYSVEDKFERLSIVDGGYNRKRGVTAFLTIQEGCDKFCTFCVVPYTRGIE 202
GK VV + E+KF++L R+ GV AF+ IQEGC+KFCTFC++PY RG E
Sbjct: 116 RGKKEFVVVLSFPEEEKFDKLPPR-----REGGVRAFVKIQEGCNKFCTFCIIPYARGKE 170
Query: 203 ISRSLSQVVDEARKLIDNGVCEITLLGQNVNAWRGKGLDGEKCTFSDLLYSLSEIKGLVR 262
SR ++ E ++L+ GV EI L GQ+VNA+ GK L G K +DLL LS+I G+ R
Sbjct: 171 RSRPPEDILKEVKRLVAQGVKEIVLTGQDVNAY-GKDLGGGKPNLADLLRELSKIPGIER 229
Query: 263 LRYTTSHPRDMSDCLIKAHGDLDVLMPYLHLPVQSGSDRILKSMNRRHTAYEYRQIIDRI 322
+R+ +SHP + +D LI+A + + P+LHLPVQSGSDRILK M R +T EY +II+++
Sbjct: 230 IRFGSSHPLEFTDDLIEAIAETPKVCPHLHLPVQSGSDRILKRMKRGYTVEEYLEIIEKL 289
Query: 323 RSVRPDIAISSDFIVGFPGETDDDFRATMDLVDKIGYAQAFSFKYSPRLGTPGSNMLEQV 382
R+ RPDIAIS+D IVGFPGET++DF T+DLV+++ + + FKYSPR GTP + M +QV
Sbjct: 290 RAARPDIAISTDIIVGFPGETEEDFEETLDLVEEVRFDRLHVFKYSPRPGTPAALMPDQV 349
Query: 383 DENVKAERLLCLQKKLREQQVSFNDACVGQIIEVLIEKHGKEKGKLVGRSPWLQSVVL-N 441
E VK ERL LQ+ ++ FN VG+ +EVL+E+ G +KG+L+GR+ + VV
Sbjct: 350 PEEVKKERLRRLQELQQQISAEFNQKLVGKTLEVLVEEGGSKKGELIGRTENYRPVVFGG 409
Query: 442 SKNHNIGDIIKVRITDVKISTLYGELVV 469
+IG+ ++V+IT+ +L GE+V
Sbjct: 410 VYTEDIGEFVEVKITEADEYSLIGEVVE 437
>gnl|CDD|37703 KOG2492, KOG2492, KOG2492, CDK5 activator-binding protein [Signal
transduction mechanisms].
Length = 552
Score = 295 bits (757), Expect = 1e-80
Identities = 164/479 (34%), Positives = 256/479 (53%), Gaps = 39/479 (8%)
Query: 25 QRFFVKSYGCQMNVYDSLRMEDMFFSQGYERVNSMDDADLIVLNTCHIREKAAEKVYSFL 84
++ ++++YGCQMNV D+ + + GY R + ++AD+I+L TC IRE A +++++ L
Sbjct: 73 RKVYLETYGCQMNVNDTEIVWSILKKSGYLRSDKPEEADVILLVTCSIREGAEQRIWNRL 132
Query: 85 GRIRNLKNSRIKEGGDLLVVVAGCVAQAEGEEILRRSPIVNVVVGPQTYYRLPELLERAR 144
+R LK +R L V V GC+A+ E+IL R +V++V GP Y LP LL AR
Sbjct: 133 KLLRALKVNR-PTSRPLRVGVLGCMAERLKEKILEREKMVDIVAGPDAYRDLPRLLAVAR 191
Query: 145 FGKRVVDTDYSVEDKFERLSIVDGGYNRKRGVTAFLTIQEGCDKFCTFCVVPYTRGIEIS 204
G+ ++ S+++ + + V + TAF++I GCD CT+C+VP+TRG E S
Sbjct: 192 GGQNGINVLLSLDETYADVQPVRVSSSST---TAFVSIMRGCDNMCTYCIVPFTRGRERS 248
Query: 205 RSLSQVVDEARKLIDNGVCEITLLGQNVNAWRGKGLDGEK-------------------- 244
R + +V+E ++L + GV E+TLLGQNVN++R
Sbjct: 249 RPIESIVEEVKRLAEQGVKEVTLLGQNVNSYRDNSAVQFSSAVPTNLSPGFSTVYKPKQG 308
Query: 245 -CTFSDLLYSLSEIKGLVRLRYTTSHPRDMSDCLIKAHGDLDVLMPYLHLPVQSGSDRIL 303
F+ LL +S +R+R+T+ HP+D D +++ D D + +HLP QSG R+L
Sbjct: 309 GLRFAHLLDQVSRADPEMRIRFTSPHPKDFPDEVLELIRDRDNICKQIHLPAQSGDSRVL 368
Query: 304 KSMNRRHTAYEYRQIIDRIRSVRPDIAISSDFIVGFPGETDDDFRATMDLVDKIGYAQAF 363
+ M R ++ Y +++ IRS+ P + +SSDFI GF GET++D + T+ L+ ++GY F
Sbjct: 369 EIMRRGYSREAYLELVAHIRSMIPGVGLSSDFITGFCGETEEDHQYTVSLLRQVGYDVVF 428
Query: 364 SFKYSPRLGTPG-SNMLEQVDENVKAERLLCLQKKLREQQVSFNDACVGQIIEVLIE--- 419
F YS R T + + V E VK RL L RE+ + FND VG VL+E
Sbjct: 429 LFAYSMREKTRAYHRLKDDVPEEVKNRRLFELITFFREEAIKFNDGLVGCTQLVLVEGKS 488
Query: 420 ------KHGKEKGKLVGRSPWLQSVVLNS----KNHNIGDIIKVRITDVKISTLYGELV 468
G+ G L P + +N+ GD + V+ITD TL G+L+
Sbjct: 489 KRSATDLCGRNDGNLKVIFPDAEMEDVNNPGLRVRAGPGDYVLVKITDSNSQTLKGQLL 547
>gnl|CDD|39556 KOG4355, KOG4355, KOG4355, Predicted Fe-S oxidoreductase [General
function prediction only].
Length = 547
Score = 173 bits (439), Expect = 1e-43
Identities = 120/450 (26%), Positives = 202/450 (44%), Gaps = 35/450 (7%)
Query: 25 QRFFVKSYGCQMNVYDSLRMEDMFFSQGYERVNSMDDADLIVLNTCHIREKAAEKVYSFL 84
Q+ ++K++GC N DS M + GY + ++ADL +LN+C ++ + +
Sbjct: 55 QKIYIKTWGCSHNNSDSEYMAGQLAAYGY-ALTEPEEADLWLLNSCTVKNPSEDA----- 108
Query: 85 GRIRNLKNSRIKEGGDLLVVVAGCVAQAEGEEILRRSPIVN--VVVGPQTYYRLPELLER 142
RNL +V+AGCV Q + V+G Q R+ E++E
Sbjct: 109 --FRNLITRGRSGKKP--LVIAGCVPQGS-----PDLDYLEGLSVIGVQQIDRVVEVVEE 159
Query: 143 ARFGKRVVDTDYSVEDKFERLSIVDGGYNRKRGVTAFLTIQEGCDKFCTFCVVPYTRGIE 202
G V + + RK + ++I GC CT+C + RG+
Sbjct: 160 TLKGHSVRLLTRRTLGALDLPKV------RKNPLIEIISINTGCLGACTYCKTKHARGLL 213
Query: 203 ISRSLSQVVDEARKLIDNGVCEITLLGQNVNAWRGKGLDGEKCTFSDLLYSLSEIKGLVR 262
S +V+ R + GVCEI L ++ A+ G D K L + I
Sbjct: 214 ASYPKDSLVERVRTSFEEGVCEIWLTSEDTGAY---GRDIGKSLPKLLWKLVEVIPESCM 270
Query: 263 LRYTTSHPRDMSDCL--IKAHGDLDVLMPYLHLPVQSGSDRILKSMNRRHTAYEYRQIID 320
LR ++P + + L + +LH+PVQSGSD +L M R + ++++ ++D
Sbjct: 271 LRAGMTNPPYILEHLEEAAFVLRHPRVYSFLHVPVQSGSDSVLTEMKREYCNFDFKIVVD 330
Query: 321 RIRSVRPDIAISSDFIVGFPGETDDDFRATMDLVDKIGYAQAFSFKYSPRLGTPGSNMLE 380
+ P I I++D I GFP ETD+DF TM+LV K + F ++ PR GTP + M +
Sbjct: 331 FLTERVPGITIATDIICGFPTETDEDFEETMELVRKYKFPSLFINQFYPRPGTPAAKM-K 389
Query: 381 QVDENVKAERLLCLQKKLREQQVSFN--DACVGQIIEVLIEKHGKEKGKLVGRSPWLQSV 438
++ +R K L E S+ +G++ VL+ + +K VG + + V
Sbjct: 390 KIPAVEVKKR----TKALSELFRSYTPYTDEIGELHRVLVTEVAADKLHYVGHNKSYEQV 445
Query: 439 VLNSKNHNIGDIIKVRITDVKISTLYGELV 468
++ + +G ++VRIT V ++ GE
Sbjct: 446 LVPLEYCKMGTWVEVRITSVGKFSMIGEPA 475
>gnl|CDD|144496 pfam00919, UPF0004, Uncharacterized protein family UPF0004. This
family is the N terminal half of the Prosite family. The
C-terminal half has been shown to be related to MiaB
proteins. This domain is a nearly always found in
conjunction with pfam04055 and pfam01938 although its
function is uncertain.
Length = 98
Score = 128 bits (325), Expect = 3e-30
Identities = 41/104 (39%), Positives = 65/104 (62%), Gaps = 6/104 (5%)
Query: 26 RFFVKSYGCQMNVYDSLRMEDMFFSQGYERVNSMDDADLIVLNTCHIREKAAEKVYSFLG 85
+ ++++ GCQMN DS M + GYE V+ ++AD++V+NTC +REKA +K +
Sbjct: 1 KVYIETLGCQMNQADSEIMAGLLKKAGYELVDDPEEADVVVVNTCAVREKAEQKSRQTIR 60
Query: 86 RIRNLKNSRIKEGGDLLVVVAGCVAQAEGEEILRRSPIVNVVVG 129
R++ LKN D +VV GC+AQ EE+L+ P V++V+G
Sbjct: 61 RLKRLKNP------DAKIVVTGCMAQRYPEELLKEIPEVDLVLG 98
>gnl|CDD|146602 pfam04055, Radical_SAM, Radical SAM superfamily. Radical SAM
proteins catalyse diverse reactions, including unusual
methylations, isomerisation, sulphur insertion, ring
formation, anaerobic oxidation and protein radical
formation.
Length = 165
Score = 88.4 bits (219), Expect = 4e-18
Identities = 49/179 (27%), Positives = 80/179 (44%), Gaps = 18/179 (10%)
Query: 180 LTIQEGCDKFCTFCVVPYTRGIEISRSLS--QVVDEARKLIDNGVCEITLLGQNVNAWRG 237
+ I GC+ CT+C P R R LS ++++EA++L GV + L G
Sbjct: 1 IIITPGCNLRCTYCAFPSIRARGKGRELSPEEILEEAKELARLGVEVVILTGGEPLLLPD 60
Query: 238 KGLDGEKCTFSDLLYSLSEIKGLVRLRYTTSHPRDMSDCL--IKAHGDLDVLMPYLHLPV 295
E+ E +R+ T+ + L +K G + + + +
Sbjct: 61 LVELLER-------LLKLEELEGIRITLETNGTLLDEELLEELKEAG-----LDRVSISL 108
Query: 296 QSGSDRILKSMNRRHTAYEYRQIIDRIRSVRPDIAISSDFIVGFPGETDDDFRATMDLV 354
QSG D +LK +NR HT E + ++ +R I + D IVG PGE D+D T++L+
Sbjct: 109 QSGDDEVLKIINRGHTFEEVLEALELLREA--GIPVVVDNIVGLPGENDEDLEETLELL 165
>gnl|CDD|31235 COG1032, COG1032, Fe-S oxidoreductase [Energy production and
conversion].
Length = 490
Score = 77.3 bits (189), Expect = 7e-15
Identities = 68/361 (18%), Positives = 127/361 (35%), Gaps = 36/361 (9%)
Query: 89 NLKNSRIKEGGDLLVVVAGCVAQAEGEEILRRSPIVNVVVGPQTYYRLPELLERARFGKR 148
L LVVV G A E +L P +V+G LPELLE G+
Sbjct: 91 KLVAKARGRRDKPLVVVGGPEATENPEPLLDFGPADIIVIGEGEET-LPELLEALEEGED 149
Query: 149 VVDTDYSVEDKFERLSIVDGGYNRK---------------------RGVTAFLTIQEGCD 187
FE + + + GC
Sbjct: 150 DPRVPGLALPSFEEIVYDQDLDDVPIPAYDLVDDHKRDDLPPYGAGENRAFSVETSRGCP 209
Query: 188 KFCTFCVVPYTRGIEISRSLSQVVDEARKLIDNGVCEITLLGQNVNAWRGKGLDGE---K 244
+ C FC + R +VV+E ++LI+ G + ++ + L+ E +
Sbjct: 210 RGCRFCSITKHFKY-RRRRPERVVEEIKELIEEGGKRVVFFVDDIFLYGSPALNDEKRFE 268
Query: 245 CTFSDLLYSLSEIKGLVRLRYTTSHPRDMSDCLIKAHGDLDVLMPYLHLPVQSGSDRILK 304
+L+ V + + ++D + + + +++ ++SGS+ +LK
Sbjct: 269 LLSLELIERGLRKGCRVHISAPSLRADTVTDEELLKLLR-EAGLRRVYIGIESGSEELLK 327
Query: 305 SMNRRHTAYEYRQIIDRIRSVRPD--IAISSDFIVGFPGETDDDFRAT---MDLVDKIGY 359
+N+ T ++++ + + + + FIVG PGET++D + T + K+G
Sbjct: 328 KINKGIT---TEEVLEEAVKIAKEHGLRVKLYFIVGLPGETEEDVKETIELAKFIKKLGP 384
Query: 360 AQAFSF-KYSPRLGTPGSNMLEQVDENVKAERLLCLQKKLREQQVSFNDACVGQIIEVLI 418
S + P GTP M + +E +K L + R + ++
Sbjct: 385 KLYVSPSPFVPLPGTPLQEMPKLENELLKRRFEGDLLQPWRPLESLASEEMYYLGRSRRA 444
Query: 419 E 419
E
Sbjct: 445 E 445
>gnl|CDD|30980 COG0635, HemN, Coproporphyrinogen III oxidase and related Fe-S
oxidoreductases [Coenzyme metabolism].
Length = 416
Score = 51.8 bits (124), Expect = 3e-07
Identities = 30/135 (22%), Positives = 60/135 (44%), Gaps = 7/135 (5%)
Query: 270 PRDMSDCLIKAHGDLDVLMPYLHLPVQSGSDRILKSMNRRHTAYEYRQIIDRIRSVRPDI 329
P + KA + V + L VQS +D +LK++ R H E ++ ++ R
Sbjct: 132 PGTVEAEKFKALKEAGV--NRISLGVQSFNDEVLKALGRIHDEEEAKEAVELARKAGFT- 188
Query: 330 AISSDFIVGFPGETDDDFRATMDLVDKIGYAQAFSFKYSPRLGTPGSNMLEQV----DEN 385
+I+ D I G PG+T + + ++ ++G + + GT + + DE+
Sbjct: 189 SINIDLIYGLPGQTLESLKEDLEQALELGPDHLSLYSLAIEPGTKFAQRKIKGKALPDED 248
Query: 386 VKAERLLCLQKKLRE 400
KA+ +++ L +
Sbjct: 249 EKADMYELVEELLEK 263
>gnl|CDD|31435 COG1242, COG1242, Predicted Fe-S oxidoreductase [General function
prediction only].
Length = 312
Score = 45.6 bits (108), Expect = 3e-05
Identities = 29/91 (31%), Positives = 44/91 (48%), Gaps = 11/91 (12%)
Query: 275 DCLIKAHGDLDVLMPY-------LHLPVQSGSDRILKSMNRRHTAYEYRQIIDRIRSVRP 327
DCL LD+L Y + L +Q+ D+ LK +NR H Y + R+R +
Sbjct: 125 DCLPDD--VLDLLAEYNKRYEVWVELGLQTAHDKTLKRINRGHDFACYVDAVKRLR--KR 180
Query: 328 DIAISSDFIVGFPGETDDDFRATMDLVDKIG 358
I + + I G PGET D+ T +V ++G
Sbjct: 181 GIKVCTHLINGLPGETRDEMLETAKIVAELG 211
>gnl|CDD|110897 pfam01938, TRAM, TRAM domain. This small domain has no known
function. However it may perform a nucleic acid binding
role (Bateman A. unpublished observation).
Length = 59
Score = 43.4 bits (103), Expect = 1e-04
Identities = 21/61 (34%), Positives = 33/61 (54%), Gaps = 3/61 (4%)
Query: 408 ACVGQIIEVLIEKHGKEKGKLVGRSPWLQSVVLNSKNHNIGDIIKVRITDVKISTLYGEL 467
VGQ EVL+E G G+ +GR+ + V + G+ ++V+IT K + L GEL
Sbjct: 2 KYVGQTQEVLVEGLGSN-GEGIGRTDNGKVVFV--PGALPGEFVEVKITKAKRNYLRGEL 58
Query: 468 V 468
+
Sbjct: 59 L 59
>gnl|CDD|31234 COG1031, COG1031, Uncharacterized Fe-S oxidoreductase [Energy
production and conversion].
Length = 560
Score = 40.7 bits (95), Expect = 0.001
Identities = 62/330 (18%), Positives = 118/330 (35%), Gaps = 65/330 (19%)
Query: 176 VTAFLTIQEGCDKF----CTFCVVPYTRGIEISRSLSQVVDEARKLIDNGVCEITLLGQ- 230
V + GC + C+FC P RG R VV+E + L GV L Q
Sbjct: 183 VICEIETYRGCPRRVSGGCSFCTEPV-RGRPEFRPPEDVVEEVKALYRAGVRHFRLGRQA 241
Query: 231 NVNAWRGKGLDGE---------KCTFSDLLYSLSEIKGL----VRLRYTTSHP---RDMS 274
++ ++ GE + F + +K L +P R+++
Sbjct: 242 DIFSYGADDNGGEVPRPNPEALEKLFRGIRNVAPNLKTLHIDNANPATIARYPEESREIA 301
Query: 275 DCLIKAHGDLDVLMPYLHLPVQSGSDRILKSMNRRHTA---YEYRQIIDRIRSVR----- 326
++K +V ++S R+ + N + E +I++ + R
Sbjct: 302 KVIVKYGTPGNVAA----FGLESADPRVARKNNLNASPEEVLEAVEIVNEVGGGRGYNGL 357
Query: 327 PDIAISSDFIVGFPGETDDDFRATMD----------LVDKIGYAQAFSFKYSPRLGTPGS 376
P + +F+ G PGET + + + LV +I Q F GTP
Sbjct: 358 PYLLPGINFVFGLPGETKETYELNYEFLKEILDEGLLVRRINIRQVVVFP-----GTPMW 412
Query: 377 NMLEQVDENVKAERLLCLQKKLREQQVSFNDACVGQII-------EVLIEKHGKEK--GK 427
++ E K + ++K+RE+ + + +++ +V +E + G+
Sbjct: 413 ERGKKKAEKHK-KLFAAFKRKVREE---IDLPMLKRVVPKGTVLRDVRVEVYEGGLTFGR 468
Query: 428 LVGRSPWLQSVVLNSKNHNIGDIIKVRITD 457
+G P L + +G + V + D
Sbjct: 469 QLGSYPLLVGIP---GRLELGRYVDVVVVD 495
>gnl|CDD|100105 cd01335, Radical_SAM, Radical SAM superfamily. Enzymes of this
family generate radicals by combining a 4Fe-4S cluster
and S-adenosylmethionine (SAM) in close proximity. They
are characterized by a conserved CxxxCxxC motif, which
coordinates the conserved iron-sulfur cluster.
Mechanistically, they share the transfer of a single
electron from the iron-sulfur cluster to SAM, which
leads to its reductive cleavage to methionine and a
5'-deoxyadenosyl radical, which, in turn, abstracts a
hydrogen from the appropriately positioned carbon atom.
Depending on the enzyme, SAM is consumed during this
process or it is restored and reused. Radical SAM
enzymes catalyze steps in metabolism, DNA repair, the
biosynthesis of vitamins and coenzymes, and the
biosynthesis of many antibiotics. Examples are biotin
synthase (BioB), lipoyl synthase (LipA), pyruvate
formate-lyase (PFL), coproporphyrinogen oxidase (HemN),
lysine 2,3-aminomutase (LAM), anaerobic ribonucleotide
reductase (ARR), and MoaA, an enzyme of the
biosynthesis of molybdopterin..
Length = 204
Score = 38.9 bits (90), Expect = 0.003
Identities = 35/212 (16%), Positives = 74/212 (34%), Gaps = 24/212 (11%)
Query: 180 LTIQEGCDKFCTFCVVP--YTRGIEISRSLSQVVDEARKLIDNGVCEITLLGQNVNAWRG 237
L + GC+ C FC P RG E + +++D + + GV + L G +
Sbjct: 1 LELTRGCNLNCGFCSNPASKGRGPESPPEIEEILDIVLEAKERGVEVVILTGGEPLLYPE 60
Query: 238 KGLDGEKCTFSDLLYSLSEIKGLVRLRYTTSHP---RDMSDCLIKAHGDLDVLMPYLHLP 294
++LL L + + T+ ++ L + D +
Sbjct: 61 ---------LAELLRRLKKELPGFEISIETNGTLLTEELLKELKELGLDGVGVS------ 105
Query: 295 VQSGSDRILKSMNRRHTAYEYRQIIDRI-RSVRPDIAISSDFIVGFPGETDDDFRATMDL 353
+ SG + + + +++ ++ + + +S+ +VG E ++D ++L
Sbjct: 106 LDSGDEEVADKIRGS--GESFKERLEALKELREAGLGLSTTLLVGLGDEDEEDDLEELEL 163
Query: 354 VDKIGYAQAFSFK-YSPRLGTPGSNMLEQVDE 384
+ + S P GTP V
Sbjct: 164 LAEFRSPDRVSLFRLLPEEGTPLELAAPVVPA 195
>gnl|CDD|48079 cd01979, Pchlide_reductase_N, Pchlide_reductase_N: N protein of the
NB protein complex of Protochlorophyllide
(Pchlide)_reductase. Pchlide reductase catalyzes the
reductive formation of chlorophyllide (chlide) from
protochlorophyllide (pchlide) during biosynthesis of
chlorophylls and bacteriochlorophylls. This group
contains both the light-independent Pchlide reductase
(DPOR) and light-dependent Pchlide reductase (LPOR).
Angiosperms contain only LPOR, cyanobacteria, algae and
gymnosperms contain both DPOR and LPOR, primitive
anoxygenic photosynthetic bacteria contain only DPOR. NB
is structurally similar to the FeMo protein of
nitrogenase, forming an N2B2 heterotetramer. N and B are
homologous to the FeMo alpha and beta subunits
respectively. Also in common with nitrogenase in vitro
DPOR activity requires ATP hydrolysis and dithoionite or
ferredoxin as electron donor. The NB protein complex may
serve as a catalytic site for Pchlide reduction similar
to MoFe for nitrogen reduction..
Length = 396
Score = 30.2 bits (68), Expect = 1.3
Identities = 15/49 (30%), Positives = 25/49 (51%)
Query: 285 DVLMPYLHLPVQSGSDRILKSMNRRHTAYEYRQIIDRIRSVRPDIAISS 333
+V PYL Q+ +L M R + + +DRIR +RPD+ ++
Sbjct: 304 EVGTPYLDKRFQAAELELLPPMVRIVEKPDNYRQLDRIRELRPDLVVTG 352
>gnl|CDD|34807 COG5210, COG5210, GTPase-activating protein [General function
prediction only].
Length = 496
Score = 28.5 bits (63), Expect = 4.0
Identities = 9/43 (20%), Positives = 21/43 (48%)
Query: 12 HMVSQIVDQCIVPQRFFVKSYGCQMNVYDSLRMEDMFFSQGYE 54
H++ + V + R+F+ + + + +LR+ D F +G
Sbjct: 367 HLLREGVVLLMFAFRWFLTLFVREFPLEYALRIWDCLFLEGSS 409
>gnl|CDD|31162 COG0820, COG0820, Predicted Fe-S-cluster redox enzyme [General
function prediction only].
Length = 349
Score = 28.3 bits (63), Expect = 4.1
Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 3/58 (5%)
Query: 172 RKRGVTAFLTIQEGCDKFCTFCVVP---YTRGIEISRSLSQVVDEARKLIDNGVCEIT 226
K T ++ Q GC CTFC R + + QV+ A+ L ++ I+
Sbjct: 97 EKDRNTLCVSSQVGCPVGCTFCATGQGGLNRNLSAGEIVEQVLLAAKALGEDFGRRIS 154
>gnl|CDD|48153 cd03336, TCP1_beta, TCP-1 (CTT or eukaryotic type II) chaperonin
family, beta subunit. Chaperonins are involved in
productive folding of proteins. They share a common
general morphology, a double toroid of 2 stacked rings.
In contrast to bacterial group I chaperonins (GroEL),
each ring of the eukaryotic cytosolic chaperonin (CTT)
consists of eight different, but homologous subunits.
Their common function is to sequester nonnative proteins
inside their central cavity and promote folding by using
energy derived from ATP hydrolysis. The best studied in
vivo substrates of CTT are actin and tubulin..
Length = 517
Score = 27.9 bits (62), Expect = 6.3
Identities = 13/46 (28%), Positives = 22/46 (47%), Gaps = 3/46 (6%)
Query: 124 VNVVVGPQTYYRLPELLERARFGKRVVDTDYSVEDKFERLSIVDGG 169
+N + Q Y PE L ++ +++ D ERL++V GG
Sbjct: 277 INCFINRQLIYNYPEQLFAD---AGIMAIEHADFDGVERLALVTGG 319
>gnl|CDD|143510 cd06843, PLPDE_III_PvsE_like, Type III Pyridoxal 5-phosphate
(PLP)-Dependent Enzyme PvsE. This subfamily is composed
of PvsE from Vibrio parahaemolyticus and similar
proteins. PvsE is a vibrioferrin biosynthesis protein
which is homologous to eukaryotic ornithine
decarboxylase (ODC) and diaminopimelate decarboxylase
(DapDC). ODC and DapDC are fold type III PLP-dependent
enzymes that contain an N-terminal PLP-binding
TIM-barrel domain and a C-terminal beta-sandwich domain,
similar to bacterial alanine racemases. It has been
suggested that PvsE may be involved in the biosynthesis
of the polycarboxylate siderophore vibrioferrin. It may
catalyze the decarboxylation of serine to yield
ethanolamine. PvsE may require homodimer formation and
the presence of the PLP cofactor for activity.
Length = 377
Score = 27.6 bits (62), Expect = 7.5
Identities = 28/122 (22%), Positives = 43/122 (35%), Gaps = 47/122 (38%)
Query: 245 CTFSDLLYSLSEIKGLVRLRYTTSHPRDMSDCL---------IKAHGD---LDVLMPYLH 292
C + +Y L+ LR +H R + L IKA+ D L L P++
Sbjct: 3 CAY---VYDLAA------LR---AHARALRASLPPGCELFYAIKANSDPPILRALAPHVD 50
Query: 293 -LPVQSGSDRILKSMNRRHTAYEYRQIIDRIRSVRPDIAISSDFIVGFPGETDDDFRATM 351
V SG + I +R+ PD + I G PG+TD + +
Sbjct: 51 GFEVASGGE------------------IAHVRAAVPDAPL----IFGGPGKTDSELAQAL 88
Query: 352 DL 353
Sbjct: 89 AQ 90
>gnl|CDD|146384 pfam03720, UDPG_MGDP_dh_C, UDP-glucose/GDP-mannose dehydrogenase
family, UDP binding domain. The
UDP-glucose/GDP-mannose dehydrogenaseses are a small
group of enzymes which possesses the ability to
catalyse the NAD-dependent 2-fold oxidation of an
alcohol to an acid without the release of an aldehyde
intermediate.
Length = 99
Score = 27.5 bits (62), Expect = 8.7
Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 6/46 (13%)
Query: 30 KSYGCQMNVYDSLRMEDMFFSQGYERVNSMDDA----DLIVLNTCH 71
G ++ VYD E+ G V+ +++A D IV+ T H
Sbjct: 27 LEEGAEVRVYDPYVPEEHED--GVTLVDDLEEALKGADAIVILTDH 70
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.322 0.140 0.409
Gapped
Lambda K H
0.267 0.0745 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 5,699,219
Number of extensions: 313083
Number of successful extensions: 765
Number of sequences better than 10.0: 1
Number of HSP's gapped: 741
Number of HSP's successfully gapped: 28
Length of query: 469
Length of database: 6,263,737
Length adjustment: 97
Effective length of query: 372
Effective length of database: 4,167,664
Effective search space: 1550371008
Effective search space used: 1550371008
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 (21.9 bits)
S2: 59 (26.5 bits)