RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5568
(685 letters)
>gnl|CDD|178745 PLN03206, PLN03206, phosphoribosylformylglycinamidine synthase;
Provisional.
Length = 1307
Score = 454 bits (1170), Expect = e-145
Identities = 183/378 (48%), Positives = 249/378 (65%), Gaps = 33/378 (8%)
Query: 103 EKTKKLKA-VPKVISDIESELCYNIEISRELTPVELDKLHWILNSSFECRKLSSHTNFKD 161
E +K++ V I IE+E C+N+ + L+ +L+ L W+L +FE L + + +
Sbjct: 2 ELLRKVQTKVSNDIVSIETEQCFNVGLESPLSAEKLETLKWLLRETFEPENLGTESFLEA 61
Query: 162 ------NSNVIEVGPRLNFSTPFCSNVLSICQSI-------------------------Q 190
N+ V+EVGPRL+F+T + +N +SIC + Q
Sbjct: 62 KKSEGLNAVVVEVGPRLSFTTAWSTNAVSICSACGLTEVTRLERSRRYLLFSSSPLDESQ 121
Query: 191 LHSCAESFYDRMTECVYSSPLTSFNHGIKPDPWFYVDVMGKGKVALQEVNQKLGLAFDEW 250
+++ A +DRMTECVY PLTSF G+ P+P + V VM +G+ AL+E+N+++GLAFDE
Sbjct: 122 INAFAAMVHDRMTECVYPQPLTSFESGVVPEPVYTVPVMEEGRAALEEINKEMGLAFDEQ 181
Query: 251 DLEYYTDIFRNKLKRNPTSVECFDLAQSNSEHSRHWFFKGKMIVDGIESDKCLFEMIMDT 310
DL+YYT +FR+ +KR+PT+VE FD+AQSNSEHSRHWFF GK+++DG K LF+M+ DT
Sbjct: 182 DLDYYTRLFRDDIKRDPTNVELFDIAQSNSEHSRHWFFSGKLVIDGQPMPKTLFQMVKDT 241
Query: 311 TKHSNQNNVIKFNDNSSAIQGYRDLPAITPTNPGAPGPYTITNQDLDIIFTAETHNFPTG 370
K + N+VI F DNSSAI+G+ P + P +PG+P P ++DLDI+ TAETHNFP
Sbjct: 242 LKANPNNSVIGFKDNSSAIRGFVVQP-LRPVSPGSPSPLAPVDRDLDILLTAETHNFPCA 300
Query: 371 VSPFSGATTGTGGRIRDVQAVGRGGNCIAGTAGYCVGNLNIPGYKLPWEDEQYGYPNNFA 430
V+P+ GA TG GGRIRD A GRG +AGTAGYCVGNL I G PWED + YP+N A
Sbjct: 301 VAPYPGAETGAGGRIRDTHATGRGSFVVAGTAGYCVGNLRIEGSYAPWEDSSFVYPSNLA 360
Query: 431 TPLNILIEASNGASDYGN 448
+PL ILI+ASNGASDYGN
Sbjct: 361 SPLQILIDASNGASDYGN 378
Score = 244 bits (625), Expect = 8e-69
Identities = 106/220 (48%), Positives = 138/220 (62%), Gaps = 19/220 (8%)
Query: 459 ATSIGEQPIKGLVDPKRGARMAVAEALTNLVFAKISDLKDVKCSGNWMWAAKLPGEGAAL 518
A +IGEQPIKGLVDPK AR+AV EALTNLV+AK++ L DVK SGNWM+AAKL GEGA +
Sbjct: 701 ACAIGEQPIKGLVDPKAMARLAVGEALTNLVWAKVTALSDVKASGNWMYAAKLDGEGADM 760
Query: 519 FDACQAMSWVLPARMGNTRREWIKPIMFSGGIGTMKHELKEKASPNV----GSLVISTYA 574
+DA A+ + +G + GG ++ + +A V G+LVIS Y
Sbjct: 761 YDAAVALRDAM-IELG---------VAIDGGKDSL--SMAAQAGGEVVKAPGNLVISAYV 808
Query: 575 PCPDIRQVVTPDIKSPRLGYSSSLLWIDLSCGQHRVGGSALSQVLAEVRGPSPDVEDAAA 634
CPDI + VTPD+K LG LL +DL G+ R+GGSAL+Q ++ PD++D A
Sbjct: 809 TCPDITKTVTPDLK---LGDDGVLLHVDLGKGKRRLGGSALAQAYDQIGDDCPDLDDVAY 865
Query: 635 LVRAFNVTQRLIQDGQVLSGHDISDGGLLICLLEMDVGAN 674
L +AF TQ LI + +GHDISDGGL++ LLEM N
Sbjct: 866 LKKAFEATQDLIAKRLISAGHDISDGGLVVTLLEMAFAGN 905
Score = 146 bits (369), Expect = 3e-36
Identities = 53/86 (61%), Positives = 64/86 (74%), Gaps = 1/86 (1%)
Query: 1 YKLPWEDEQYGYPNNFATPLNILIEASNGASDYGNKFGEPLILGFARSYGQHC-NGERRE 59
PWED + YP+N A+PL ILI+ASNGASDYGNKFGEPLI G+ R++G NGERRE
Sbjct: 344 SYAPWEDSSFVYPSNLASPLQILIDASNGASDYGNKFGEPLIQGYTRTFGMRLPNGERRE 403
Query: 60 WIKPIMFSGGIGTMKHELKEKASPNV 85
W+KPIMFSGGIG + H K P++
Sbjct: 404 WLKPIMFSGGIGQIDHTHLTKGEPDI 429
Score = 57.9 bits (140), Expect = 1e-08
Identities = 21/40 (52%), Positives = 26/40 (65%)
Query: 537 RREWIKPIMFSGGIGTMKHELKEKASPNVGSLVISTYAPC 576
RREW+KPIMFSGGIG + H K P++G LV+ P
Sbjct: 401 RREWLKPIMFSGGIGQIDHTHLTKGEPDIGMLVVKIGGPA 440
>gnl|CDD|188163 TIGR01735, FGAM_synt, phosphoribosylformylglycinamidine synthase,
single chain form. This model represents a
single-molecule form of
phosphoribosylformylglycinamidine synthase, also called
FGAM synthase, an enzyme of purine de novo biosynthesis.
This form is found mostly in eukaryotes and
Proteobacteria. In Bacillus subtilis PurL (FGAM synthase
II) and PurQ (FGAM synthase I), homologous to different
parts of this model, perform the equivalent function;
the unrelated small protein PurS is also required and
may be a third subunit [Purines, pyrimidines,
nucleosides, and nucleotides, Purine ribonucleotide
biosynthesis].
Length = 1310
Score = 374 bits (962), Expect = e-115
Identities = 134/367 (36%), Positives = 191/367 (52%), Gaps = 39/367 (10%)
Query: 111 VPKVISDIESELCYNIEISRELTPVELDKLH--WILNSSFECRKLSSHTNFKDNSNVIEV 168
VP++ + +E CY + LT E +KL + S E + S ++EV
Sbjct: 24 VPELTG-VYAEFCYFVGWESALTADEEEKLQLLLLAGSVLEPPQ--SPLG----RGLLEV 76
Query: 169 GPRLNFSTPFCSNVLSICQSI-------------------------QLHSCAESFYDRMT 203
GPRL +P+ S SI ++ Q A +DRMT
Sbjct: 77 GPRLGTISPWSSKATSIARNCGLAKVDRIERGRRYYLSGAHPLSEEQEAQAAALLHDRMT 136
Query: 204 ECVYSSPLTSF--NHGIKPDPWFYVDVMGKGKVALQEVNQKLGLAFDEWDLEYYTDIFRN 261
E V + +F +P +DV+G G++AL++ NQ+LGLA DE +++Y T F
Sbjct: 137 ESVLPHEIEAFELFSVPEPLNLTTIDVLGGGRLALEKANQELGLALDEDEIDYLTKRF-Q 195
Query: 262 KLKRNPTSVECFDLAQSNSEHSRHWFFKGKMIVDGIESDKCLFEMIMDTTKHSNQNNVIK 321
+L+RNP+ VE AQ+NSEH RH F I+DG + DK LF+MI T + + +N V
Sbjct: 196 ELQRNPSDVELMMFAQANSEHCRHKIFNADWIIDGKKQDKSLFQMIKSTHEANPENTVSA 255
Query: 322 FNDNSSAIQGYRDLPAITPTNPGAPGPYTITNQDLDIIFTAETHNFPTGVSPFSGATTGT 381
+ DNSS I+G++ + + P P P + I+ ETHN PT ++PF GA+TG
Sbjct: 256 YKDNSSVIEGHK-VGRLRPDPPTRPEYRQHQEDLVHILMKVETHNHPTAIAPFPGASTGA 314
Query: 382 GGRIRDVQAVGRGGNCIAGTAGYCVGNLNIPGYKLPWEDEQYGYPNNFATPLNILIEASN 441
GG IRD A GRG AG G+CV NLNIPG + PWED + P A+PL+I+IEA
Sbjct: 315 GGEIRDEGATGRGAKPKAGLTGFCVSNLNIPGLEQPWEDP-FQKPERIASPLDIMIEAPL 373
Query: 442 GASDYGN 448
GA+ + N
Sbjct: 374 GAAAFNN 380
Score = 243 bits (622), Expect = 2e-68
Identities = 101/219 (46%), Positives = 133/219 (60%), Gaps = 22/219 (10%)
Query: 459 ATSIGEQPIKGLVDPKRGARMAVAEALTNLVFAKISDLKDVKCSGNWMWAAKLPGEGAAL 518
A +IGE+P K L+DPK AR+AV EA+TNL A + DL DVK S NWM AA PGE AAL
Sbjct: 709 AMAIGERPPKALLDPKASARLAVGEAITNLAAALVGDLSDVKLSANWMAAAGHPGEDAAL 768
Query: 519 FDACQAMSWVLPARMGNTRREWIKPIMFSGGIGTM--------KHELKEKASPNVGSLVI 570
+DA +A+S + PA +G I G ++ E K +P GSLVI
Sbjct: 769 YDAVKAVSELCPA-LG---------IAIPVGKDSLSMKTRWQDNGETKSVTAP--GSLVI 816
Query: 571 STYAPCPDIRQVVTPDIKSPRLGYSSSLLWIDLSCGQHRVGGSALSQVLAEVRGPSPDVE 630
S +AP PD+R+ VTPD+K S LL +DL G++R+GGSAL+QV ++ G PD++
Sbjct: 817 SAFAPVPDVRKTVTPDLKHD--KGDSHLLLVDLGPGKNRLGGSALAQVFGQLGGDCPDLD 874
Query: 631 DAAALVRAFNVTQRLIQDGQVLSGHDISDGGLLICLLEM 669
D L F V Q L+ +G +L+ HD SDGGL+ LLEM
Sbjct: 875 DPERLKAFFAVMQGLVAEGLLLAYHDRSDGGLVTTLLEM 913
Score = 124 bits (312), Expect = 4e-29
Identities = 33/88 (37%), Positives = 52/88 (59%), Gaps = 4/88 (4%)
Query: 1 YKLPWEDEQYGYPNNFATPLNILIEASNGASDYGNKFGEPLILGFARSYGQHCN---GER 57
+ PWED + P A+PL+I+IEA GA+ + N+FG P +LG+ R++ + G+
Sbjct: 347 LEQPWEDP-FQKPERIASPLDIMIEAPLGAAAFNNEFGRPNLLGYFRTFELKASLPGGQV 405
Query: 58 REWIKPIMFSGGIGTMKHELKEKASPNV 85
R + KPIM +GGIG++ E +K
Sbjct: 406 RGYHKPIMLAGGIGSIDAEHIQKGEIEP 433
Score = 52.1 bits (125), Expect = 1e-06
Identities = 39/141 (27%), Positives = 55/141 (39%), Gaps = 45/141 (31%)
Query: 534 GNTRREWIKPIMFSGGIGTMKHELKEKASPNVGSLVISTYAPCPDIRQVVTPDIKSPRLG 593
G R + KPIM +GGIG++ E +K G+L+I P I LG
Sbjct: 402 GGQVRGYHKPIMLAGGIGSIDAEHIQKGEIEPGALLIVLGGPAMLI-----------GLG 450
Query: 594 YSSSLLWIDLSCGQHRVGGSALSQV---------LAEVRGPSPDVEDAAALVRAFNVTQR 644
GG+A S V A V+ +P++E R V R
Sbjct: 451 -----------------GGAASSMVSGTNTADLDFASVQRGNPEMER-----RCQEVIDR 488
Query: 645 LIQDGQ---VLSGHDISDGGL 662
Q G+ ++S HD+ GGL
Sbjct: 489 CWQLGEKNPIISIHDVGAGGL 509
>gnl|CDD|235394 PRK05297, PRK05297, phosphoribosylformylglycinamidine synthase;
Provisional.
Length = 1290
Score = 336 bits (863), Expect = e-101
Identities = 120/371 (32%), Positives = 175/371 (47%), Gaps = 44/371 (11%)
Query: 106 KKLKAVPKVISDIESELCYNIEISRELTPVELDKLHWILNSSFECRKLSSHTNFKDNSNV 165
+L+A ++ I +E + ++S L+ E KL +L + H +
Sbjct: 20 ARLQAAVLPVTSIYAEYVHFADLSAPLSAEEQAKLERLLTY-----GPAEHEP---AGRL 71
Query: 166 IEVGPRLNFSTPFCSNVLSICQ-----------------------SIQLHSCAESFYDRM 202
V PR +P+ S I + Q + A +DRM
Sbjct: 72 FLVTPRPGTISPWSSKATDIAHNCGLAGIRRIERGIAYYVEAALSAEQRAALAALLHDRM 131
Query: 203 TECVYSSP--LTSFNHGIKPDPWFYVDVMGKGKVALQEVNQKLGLAFDEWDLEYYTDIFR 260
TE V++ + +P P VDV+G G+ AL+ N +LGLA E +++Y + F
Sbjct: 132 TESVFADLDDAEALFSHHEPKPLTSVDVLGGGRAALEAANVELGLALAEDEIDYLVEAF- 190
Query: 261 NKLKRNPTSVECFDLAQSNSEHSRHWFFKGKMIVDGIESDKCLFEMIMDTTKHSNQNNVI 320
KL RNPT VE AQ+NSEH RH F +DG E K LF+MI +T + + +
Sbjct: 191 TKLGRNPTDVELMMFAQANSEHCRHKIFNADWTIDGEEQPKSLFKMIKNTHETNPDGVLS 250
Query: 321 KFNDNSSAIQGY---RDLPAITPTNPGAPGPYTITNQDLDIIFTAETHNFPTGVSPFSGA 377
+ DN++ ++G R P G Y + I+ ETHN PT +SPF GA
Sbjct: 251 AYKDNAAVMEGSKVGRFFPD------PDTGRYGYHQEPAHILMKVETHNHPTAISPFPGA 304
Query: 378 TTGTGGRIRDVQAVGRGGNCIAGTAGYCVGNLNIPGYKLPWEDEQYGYPNNFATPLNILI 437
TG+GG IRD A GRG AG G+ V NL IPG++ PWE++ YG P A+ L+I+I
Sbjct: 305 ATGSGGEIRDEGATGRGSKPKAGLTGFSVSNLRIPGFEQPWEED-YGKPERIASALDIMI 363
Query: 438 EASNGASDYGN 448
E G + + N
Sbjct: 364 EGPLGGAAFNN 374
Score = 248 bits (637), Expect = 3e-70
Identities = 94/227 (41%), Positives = 127/227 (55%), Gaps = 36/227 (15%)
Query: 458 IATSIGEQPIKGLVDPKRGARMAVAEALTNLVFAKISDLKDVKCSGNWMWAAKLPGEGAA 517
A ++GE+ L+D ARMAV EALTN+ A I DLK +K S NWM AA PGE A
Sbjct: 688 EAMAMGERTPVALLDAAASARMAVGEALTNIAAAPIGDLKRIKLSANWMAAAGHPGEDAR 747
Query: 518 LFDACQAMSWVL-PARMGNTRREWIKPIMFSGGIG--------TMK------HELKEKAS 562
L+DA +A+ L PA GI +MK E KE S
Sbjct: 748 LYDAVKAVGMELCPAL----------------GITIPVGKDSLSMKTKWQEGGEDKEVTS 791
Query: 563 PNVGSLVISTYAPCPDIRQVVTPDIKSPRLGYSSSLLWIDLSCGQHRVGGSALSQVLAEV 622
P SL+IS +AP D+R+ +TP +++ + ++LL IDL G++R+GGSAL+QV ++
Sbjct: 792 P--LSLIISAFAPVEDVRKTLTPQLRTDK---DTALLLIDLGRGKNRLGGSALAQVYNQL 846
Query: 623 RGPSPDVEDAAALVRAFNVTQRLIQDGQVLSGHDISDGGLLICLLEM 669
+PDV+DA L FN Q L+ +G +L+ HD SDGGLL L EM
Sbjct: 847 GDKAPDVDDAEDLKGFFNAIQALVAEGLLLAYHDRSDGGLLTTLAEM 893
Score = 111 bits (281), Expect = 2e-25
Identities = 33/88 (37%), Positives = 53/88 (60%), Gaps = 4/88 (4%)
Query: 1 YKLPWEDEQYGYPNNFATPLNILIEASNGASDYGNKFGEPLILGFARSYGQ---HCNGER 57
++ PWE++ YG P A+ L+I+IE G + + N+FG P +LG+ R++ Q N E
Sbjct: 341 FEQPWEED-YGKPERIASALDIMIEGPLGGAAFNNEFGRPNLLGYFRTFEQKVNSHNEEV 399
Query: 58 REWIKPIMFSGGIGTMKHELKEKASPNV 85
R + KPIM +GGIG ++ + +K V
Sbjct: 400 RGYHKPIMLAGGIGNIRADHVQKGEIPV 427
Score = 45.9 bits (110), Expect = 8e-05
Identities = 13/35 (37%), Positives = 21/35 (60%)
Query: 536 TRREWIKPIMFSGGIGTMKHELKEKASPNVGSLVI 570
R + KPIM +GGIG ++ + +K VG+ +I
Sbjct: 398 EVRGYHKPIMLAGGIGNIRADHVQKGEIPVGAKLI 432
>gnl|CDD|100035 cd02204, PurL_repeat2, PurL subunit of the formylglycinamide
ribonucleotide amidotransferase (FGAR-AT), second
repeat. FGAR-AT catalyzes the ATP-dependent conversion
of formylglycinamide ribonucleotide (FGAR) and glutamine
to formylglycinamidine ribonucleotide (FGAM), ADP,
phosphate, and glutamate in the fourth step of the
purine biosynthetic pathway. In eukaryotes and
Gram-negative bacteria, FGAR-AT is encoded by the purL
gene as a multidomain protein with a molecular mass of
about 140 kDa. In Gram-positive bacteria and archaea
FGAR-AT is a complex of three proteins: PurS, PurL, and
PurQ. PurL itself contains two tandem N- and C-terminal
domains (four domains altogether). The N-terminal
domains bind ATP and are related to the ATP-binding
domains of HypE, ThiL, SelD and PurM.
Length = 264
Score = 177 bits (451), Expect = 7e-51
Identities = 68/216 (31%), Positives = 98/216 (45%), Gaps = 19/216 (8%)
Query: 454 NDRAIATSIGEQPIKGLVDPKRGARMAVAEALTNLVFAKISDLKDVKCSGNWMWAAKLPG 513
D+ +A S GE P L+DP GA +AVAEA+ NLV L + N+ K G
Sbjct: 11 TDKGLAMSTGENPRYSLLDPYAGAALAVAEAVRNLVAVGADPL-AITDCLNFGNPEKPEG 69
Query: 514 EGAALFDACQAMSWVLPARMGNTRREWIKPIMFSGGIGTMKHELKEKASPNVGSLVISTY 573
E L +A + A +G GG ++ +E + A P +LVI
Sbjct: 70 EMGQLVEAVLGLGDACRA-LG---------TPVIGGKDSLYNETEGVAIP--PTLVIGAV 117
Query: 574 APCPDIRQVVTPDIKSPRLGYSSSLLWIDLSCGQHRVGGSALSQVLAEVRGPSPDVEDAA 633
D+R++VT D K L I + + +GGS + + G +P + D
Sbjct: 118 GVVDDVRKIVTLDFKKEG----DLLYLIGETKDE--LGGSEYALAYHGLGGGAPPLVDLE 171
Query: 634 ALVRAFNVTQRLIQDGQVLSGHDISDGGLLICLLEM 669
F+ Q LI++G VLS HD+SDGGL + L EM
Sbjct: 172 REKALFDAVQELIKEGLVLSAHDVSDGGLAVALAEM 207
>gnl|CDD|223058 PHA03366, PHA03366, FGAM-synthase; Provisional.
Length = 1304
Score = 133 bits (337), Expect = 3e-32
Identities = 70/250 (28%), Positives = 109/250 (43%), Gaps = 29/250 (11%)
Query: 426 PNNFATPLNILIEASNGASDYGNIEPCSNDRAIATSIGEQPIKGLVDPKRGARMAVAEAL 485
A L D + P +++GEQ K +DP GA+ A+ EAL
Sbjct: 661 TYQEADELINSPLTWFDPDDESVLHP--AVPGTCSALGEQGYKVQLDPILGAKYAIVEAL 718
Query: 486 TNLVFAKISDLKDVKCSGNWMWAAKLPGEGAA-----LFDACQAMSWVLPARMGNTRREW 540
TNL+ A +++L+D+ + + W P + AA AC+ R
Sbjct: 719 TNLMLAPVANLEDITITLSVTWP---PTDQAASELYRALAACKEF-----CRELGV---- 766
Query: 541 IKPIMFSGGIGTMKHELKEKASPNVGSLVISTYAPCPDIRQVVTPDIKSPRLGYSSSLLW 600
F+ + + + + P ++V + AP P +TPD+K P S+L+
Sbjct: 767 --NFTFTSASSSPRQDQPPQPGPLFNTIVFTASAPVPSSTPRLTPDLKKPG----SALVH 820
Query: 601 IDLSCG-QHRVGGSALSQVLAEVRGPSPDVEDAAALVRAFNVTQRLIQDGQVLSGHDISD 659
LS ++ + GS Q+ G PD+ + L F Q LI +G V+SGHD+SD
Sbjct: 821 --LSISPEYTLAGSVFEQIFGLKSGTLPDI-SPSYLKNLFRAVQHLISEGLVVSGHDVSD 877
Query: 660 GGLLICLLEM 669
GGL+ CL EM
Sbjct: 878 GGLIACLAEM 887
>gnl|CDD|223124 COG0046, PurL, Phosphoribosylformylglycinamidine (FGAM) synthase,
synthetase domain [Nucleotide transport and metabolism].
Length = 743
Score = 123 bits (310), Expect = 5e-29
Identities = 67/224 (29%), Positives = 102/224 (45%), Gaps = 36/224 (16%)
Query: 454 NDRAIATSIGEQPIKGLVDPKRGARMAVAEALTNLVFAKISDLKDVKCSGNWMWAAKLPG 513
+ +A + GE P L+DP GA++AVAEAL NL K + + N +
Sbjct: 461 TGKGLAMTTGENPRYALLDPYAGAKLAVAEALRNLAATGA---KPLALTDNLNFGNPEKP 517
Query: 514 EGAALF--------DACQAMSWVLPARMGNTRREWIKPIMFSGGIGTMKHELKEKASPNV 565
E F +AC+A+ +P GN ++ +E + P
Sbjct: 518 EVMGQFVAAVAGLAEACRALG--IPVVGGNV---------------SLYNETNGQPIPP- 559
Query: 566 GSLVISTYAPCPDIRQVVTPDIKSPRLGYSSSLLWIDLSCGQHRVGGSALSQVLAEVRGP 625
+ VI D+R+V+TP++K + LL L + +GGS L+QV +
Sbjct: 560 -TPVIGAVGLVEDVRKVLTPELKK------AGLLLYLLGETKDELGGSELAQVYHGLGDG 612
Query: 626 SPDVEDAAALVRAFNVTQRLIQDGQVLSGHDISDGGLLICLLEM 669
P V D A + F+ + LI DG+VL+ HD+SDGGL + L EM
Sbjct: 613 PPPVVDLAEEKKFFDAIRALIADGKVLAAHDVSDGGLAVALAEM 656
Score = 96.5 bits (241), Expect = 1e-20
Identities = 57/225 (25%), Positives = 84/225 (37%), Gaps = 58/225 (25%)
Query: 224 FYVDVMGKGKVALQEVNQKLGLAFDEWDLEYYTDIFRNKLKRNPTSVECFDLAQSNSEHS 283
VD + + AL++ N +LGLA + + +Y I L R PT E AQ SEH
Sbjct: 1 TMVDFLSGSREALEKANTELGLALSDDEYDY---IREFLLGREPTDTELGMFAQMWSEHC 57
Query: 284 RHWFFKGKMIVDGIESDKCLFEMIMDTTKHSNQNNVIKFNDNSSAIQGYRDLPAITPTNP 343
+ +S K L +M T H+ + + DN+
Sbjct: 58 SY------------KSSKSLLKMF--PTTHTGEYVLSGPGDNA----------------- 86
Query: 344 GAPGPYTITNQDLDIIFTAETHNFPTGVSPFSGATTGTGGRIRDVQAVGRGGNCIAGTAG 403
G I + ++F E+HN P+ + P+ GA TG GG IRDV ++ G IA
Sbjct: 87 ---GVVDIGDGWA-VVFKVESHNHPSAIEPYQGAATGVGGIIRDVLSM--GARPIALLDS 140
Query: 404 YCVGNLNIPGYKLPWEDEQYGYPNNFATPLNILIEASNGASDYGN 448
G +I I+ G + YGN
Sbjct: 141 LRFGIPDIEK------------------TRYIMKGVVAGIAAYGN 167
Score = 40.7 bits (96), Expect = 0.003
Identities = 16/61 (26%), Positives = 26/61 (42%), Gaps = 13/61 (21%)
Query: 19 PLNILIEASNGASDYGNKFGEPLILG---FARSYGQHCNGERREWIKPIMFSGGIGTMKH 75
I+ G + YGN+ G P + G F SY G P++ +G +G ++
Sbjct: 151 TRYIMKGVVAGIAAYGNEIGVPTVGGEFRFDESY----VG------NPLVNAGCVGLIRK 200
Query: 76 E 76
E
Sbjct: 201 E 201
>gnl|CDD|100034 cd02203, PurL_repeat1, PurL subunit of the formylglycinamide
ribonucleotide amidotransferase (FGAR-AT), first repeat.
FGAR-AT catalyzes the ATP-dependent conversion of
formylglycinamide ribonucleotide (FGAR) and glutamine to
formylglycinamidine ribonucleotide (FGAM), ADP,
phosphate, and glutamate in the fourth step of the
purine biosynthetic pathway. In eukaryotes and
Gram-negative bacteria, FGAR-AT is encoded by the purL
gene as a multidomain protein with a molecular mass of
about 140 kDa. In Gram-positive bacteria and archaea
FGAR-AT is a complex of three proteins: PurS, PurL, and
PurQ. PurL itself contains two tandem N- and C-terminal
domains (four domains altogether). The N-terminal
domains bind ATP and are related to the ATP-binding
domains of HypE, ThiL, SelD and PurM.
Length = 313
Score = 116 bits (293), Expect = 1e-28
Identities = 37/96 (38%), Positives = 48/96 (50%), Gaps = 12/96 (12%)
Query: 353 NQDLDIIFTAETHNFPTGVSPFSGATTGTGGRIRDVQAVGRGGNCIAGTAGYCVGNLNIP 412
++F ETHN P+ + PF GA TG GG IRD+ ++ G IA G G+L+IP
Sbjct: 23 KMIWAVVFKVETHNHPSAIEPFGGAATGVGGIIRDILSM--GARPIALLDGLRFGDLDIP 80
Query: 413 GYKLPWEDEQYGYPNNFATPLNILIEASNGASDYGN 448
GY+ P +P IL G SDYGN
Sbjct: 81 GYE----------PKGKLSPRRILDGVVAGISDYGN 106
Score = 77.5 bits (192), Expect = 2e-15
Identities = 19/85 (22%), Positives = 30/85 (35%), Gaps = 7/85 (8%)
Query: 7 DEQYGYPNNFATPLNILIEASNGASDYGNKFGEPLILGFARSYGQHCNGERREWIKPIMF 66
D P +P IL G SDYGN G P + G R + P++
Sbjct: 78 DIPGYEPKGKLSPRRILDGVVAGISDYGNCIGIPTVGGEVRFDP-------SYYGNPLVN 130
Query: 67 SGGIGTMKHELKEKASPNVVQMAII 91
G +G + + K+ ++
Sbjct: 131 VGCVGIVPKDHIVKSKAPGPGDLVV 155
Score = 35.5 bits (83), Expect = 0.064
Identities = 7/32 (21%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 540 WIKPIMFSGGIGTMKHE-LKEKASPNVGSLVI 570
+ P++ G +G + + + + +P G LV+
Sbjct: 124 YGNPLVNVGCVGIVPKDHIVKSKAPGPGDLVV 155
>gnl|CDD|233554 TIGR01739, tegu_FGAM_synt, herpesvirus tegument
protein/v-FGAM-synthase. This model describes a family
of large proteins of herpesvirues. The protein is
described variably as tegument protein or
phosphoribosylformylglycinamidine synthase
(FGAM-synthase). Most of the length of the protein shows
homology to eukaryotic FGAM-synthase. Functional
characterizations were not verified during construction
of this model.
Length = 1202
Score = 112 bits (282), Expect = 2e-25
Identities = 61/218 (27%), Positives = 95/218 (43%), Gaps = 26/218 (11%)
Query: 456 RAIATSIGEQPIKGLVDPKRGARMAVAEALTNLVFAKISDLKDVKCSGNWMWAAKLPGEG 515
+ +++GEQ K DPKRGA A+ EAL NL + + L+DV + + W+
Sbjct: 593 SCVCSALGEQTYKVQADPKRGATYAITEALLNLSLSPWNTLEDVIITLSVTWSPTDHVYS 652
Query: 516 ---AALFDACQAMSWVLPARMGNTRREWIKPIMFSGGIGTMKHELKEKASPNVGSLVIST 572
AL AC+ +G + ++ S S+V S
Sbjct: 653 LLKDALR-ACKDFC----EELG-------VSFTVTS---AASSPTQDSGSAPFMSIVFSA 697
Query: 573 YAPCPDIRQVVTPDIKSPRLGYSSSLLWIDLSCGQHR-VGGSALSQVLAEVRGPSPDVED 631
P + +TPD+KS S L+W LS + GS Q+L P
Sbjct: 698 SCPVLLSAKKITPDLKSH----GSHLIW--LSLHPSYTLAGSIFEQILGLSFIRLP-ALS 750
Query: 632 AAALVRAFNVTQRLIQDGQVLSGHDISDGGLLICLLEM 669
+L + + Q L+++G ++SGHD+SDGGL+ C+ EM
Sbjct: 751 PVSLKKLLSALQTLVKEGVIVSGHDVSDGGLVACVAEM 788
>gnl|CDD|100029 cd02193, PurL, Formylglycinamide ribonucleotide amidotransferase
(FGAR-AT) catalyzes the ATP-dependent conversion of
formylglycinamide ribonucleotide (FGAR) and glutamine to
formylglycinamidine ribonucleotide (FGAM), ADP,
phosphate, and glutamate in the fourth step of the
purine biosynthetic pathway. In eukaryotes and
Gram-negative bacteria, FGAR-AT is encoded by the purL
gene as a multidomain protein with a molecular mass of
about 140 kDa. In Gram-positive bacteria and archaea
FGAR-AT is a complex of three proteins: PurS, PurL, and
PurQ. PurL itself contains two tandem N- and C-terminal
domains (four domains altogether). The N-terminal
domains bind ATP and are related to the ATP-binding
domains of HypE, ThiL, SelD and PurM.
Length = 272
Score = 80.8 bits (199), Expect = 7e-17
Identities = 64/220 (29%), Positives = 94/220 (42%), Gaps = 23/220 (10%)
Query: 458 IATSIGEQPIKGLVDPKRGARMAVAEALTNLVFAKISDLKDVKCSGNWMWAAKLPGEGAA 517
A I E +DP GA V A+ + + A D K + S NWM +A PGE A
Sbjct: 3 EAMKIEEHNHPAAIDPAAGAATGVGGAIRD-IAATGIDAKPIALSANWMASAGHPGEDAI 61
Query: 518 LFDACQAM-----SWVLPARMGNTRREWIKPIMFSGGIGTMKHELKEKASPNVGSLVIST 572
L+DA + + LP +G R M +E +E P SLVIS
Sbjct: 62 LYDAVKGVAELCNQLGLPIPVGKDR-------MSMKTRWQEGNEQREMTHPP--SLVISA 112
Query: 573 YAPCPDIRQVVTPDIKSPRLGYSSSLLWIDLSCGQHRVGGSALSQVL---AEVRGPSPDV 629
+ +R + G ++LL I G + +GG+AL+ V ++ S V
Sbjct: 113 FG---RVRDDRHTLPQLSTEG--NALLLIGGGKGHNGLGGTALASVALSYRQLGDKSAQV 167
Query: 630 EDAAALVRAFNVTQRLIQDGQVLSGHDISDGGLLICLLEM 669
D A + Q L+ G++L+ HD GGLL+ L E+
Sbjct: 168 RDPAQEKGFYEAMQALVAAGKLLAWHDRGAGGLLVALAEL 207
Score = 55.4 bits (133), Expect = 3e-08
Identities = 24/91 (26%), Positives = 33/91 (36%), Gaps = 19/91 (20%)
Query: 358 IIFTAETHNFPTGVSPFSGATTGTGGRIRDVQAVGRGGNCIAGTAGYCVGNLNIPGYKLP 417
E HN P + P +GA TG GG IRD+ A G IA +A + +
Sbjct: 3 EAMKIEEHNHPAAIDPAAGAATGVGGAIRDIAATGIDAKPIALSANWMASAGHP------ 56
Query: 418 WEDEQYGYPNNFATPLNILIEASNGASDYGN 448
IL +A G ++ N
Sbjct: 57 -------------GEDAILYDAVKGVAELCN 74
Score = 41.5 bits (97), Expect = 7e-04
Identities = 15/82 (18%), Positives = 29/82 (35%), Gaps = 4/82 (4%)
Query: 14 NNFATPLNILIEASNGASDYGNKFGEPLILGFARSY----GQHCNGERREWIKPIMFSGG 69
IL +A G ++ N+ G P+ +G R Q N +R P +
Sbjct: 53 AGHPGEDAILYDAVKGVAELCNQLGLPIPVGKDRMSMKTRWQEGNEQREMTHPPSLVISA 112
Query: 70 IGTMKHELKEKASPNVVQMAII 91
G ++ + + A++
Sbjct: 113 FGRVRDDRHTLPQLSTEGNALL 134
>gnl|CDD|234921 PRK01213, PRK01213, phosphoribosylformylglycinamidine synthase II;
Provisional.
Length = 724
Score = 65.1 bits (160), Expect = 7e-11
Identities = 62/253 (24%), Positives = 92/253 (36%), Gaps = 80/253 (31%)
Query: 454 NDRAIATSIGEQPIKGLVDPKRGARMAVAEALTNLVFAKISDLKDVKCSG---------- 503
+ +A + P +DP GA++AVAEA NL G
Sbjct: 438 GGKGLALTTDCNPRYVYLDPYEGAKLAVAEAARNLA-----------AVGATPLAITDCL 486
Query: 504 NW--------MWAAKLPGEGAALFDACQAMSWVLPARMGN------TRREWIKPIMFSGG 549
N+ MW G A DAC+A+ P GN T I P
Sbjct: 487 NFGNPEKPEVMWQFVEAVRGLA--DACRALG--TPVVGGNVSLYNETGGTAIYP------ 536
Query: 550 IGTMKHELKEKASPNVGSL-VISTYAPCPDIRQVVTPDIKSPRLGYSSSLLWIDLSCGQH 608
+P +G + +I D+ + T K + + G+
Sbjct: 537 ------------TPVIGMVGLI------DDVSKRTTSGFKKE----GDLIYLL----GET 570
Query: 609 R--VGGSALSQVL-AEVRGPSPDVEDAAALVRAFNVTQRLIQDGQVLSGHDISDGGLLIC 665
+ +GGS +V+ V G P V D A R + + I++G V S HD+S+GGL +
Sbjct: 571 KDELGGSEYLKVIHGHVGGRPPKV-DLEAEKRLQELVREAIREGLVTSAHDVSEGGLAVA 629
Query: 666 LLEM----DVGAN 674
L EM +GA
Sbjct: 630 LAEMAIAGGLGAE 642
Score = 42.8 bits (102), Expect = 5e-04
Identities = 16/35 (45%), Positives = 25/35 (71%)
Query: 358 IIFTAETHNFPTGVSPFSGATTGTGGRIRDVQAVG 392
++F E+HN P+ V P+ GA TG GG +RD+ ++G
Sbjct: 83 VVFKIESHNHPSAVEPYQGAATGVGGILRDIFSMG 117
>gnl|CDD|217219 pfam02769, AIRS_C, AIR synthase related protein, C-terminal domain.
This family includes Hydrogen expression/formation
protein HypE, AIR synthases EC:6.3.3.1, FGAM synthase
EC:6.3.5.3 and selenide, water dikinase EC:2.7.9.3. The
function of the C-terminal domain of AIR synthase is
unclear, but the cleft formed between N and C domains is
postulated as a sulphate binding site.
Length = 150
Score = 56.2 bits (136), Expect = 2e-09
Identities = 23/73 (31%), Positives = 29/73 (39%), Gaps = 5/73 (6%)
Query: 606 GQHRVGGSALSQVLAEV-RGPSPDVEDAAALVRAFNVTQRLIQDGQVLSGHDISDGGLLI 664
G + GS LS V + + + D V L G V + HDI+ GGL
Sbjct: 10 GSSGLHGSGLSLVRKGLEDDGAVPLGDPLLEPTLIYVVLLLAALGLVKAAHDITGGGLAG 69
Query: 665 CLLEM----DVGA 673
L EM VGA
Sbjct: 70 ALAEMAPASGVGA 82
>gnl|CDD|233552 TIGR01736, FGAM_synth_II, phosphoribosylformylglycinamidine
synthase II. Phosphoribosylformylglycinamidine synthase
is a single, long polypeptide in most Proteobacteria and
eukarotes. Three proteins are required in Bacillus
subtilis and many other species. This is the longest of
the three and is designated PurL,
phosphoribosylformylglycinamidine synthase II, or FGAM
synthase II [Purines, pyrimidines, nucleosides, and
nucleotides, Purine ribonucleotide biosynthesis].
Length = 715
Score = 59.6 bits (145), Expect = 4e-09
Identities = 58/242 (23%), Positives = 79/242 (32%), Gaps = 60/242 (24%)
Query: 453 SNDRAIATSIGEQPIKGLVDPKRGARMAVAEALTNLVFAKISDLKDVKC--SGN------ 504
+ +A + P +DP GA AVAEA NL L V C GN
Sbjct: 428 TGKLGLALTADCNPRYVYLDPYAGAAGAVAEAYRNLAAVGAEPLAAVDCLNFGNPERPEV 487
Query: 505 -WMWAAKLPGEGAALFDACQAMSWVLPARMGN------TRREWIKPIMFSGGIGTMKHEL 557
W + + G G DAC+A+ P GN T I P G +G E
Sbjct: 488 YWQFVEAVKGLG----DACRALG--TPVVGGNVSLYNETNGVPIAPTPTIGMVG--LVED 539
Query: 558 KEKAS----PNVGSLVISTYAPCPDIRQVVTPDIKSPRLGYSSSLLWIDLSCGQHRVGGS 613
EK G + ++ GGS
Sbjct: 540 VEKLLTSNFKKEGDAIYLIGETKDEL-------------------------------GGS 568
Query: 614 ALSQVL-AEVRGPSPDVEDAAALVRAFNVTQRLIQDGQVLSGHDISDGGLLICLLEMDVG 672
+V+ V G P V D + + I+ G V + HD+S GGL + L EM
Sbjct: 569 EYLRVIHGIVSGQVPAV-DLEEEKELADAVREAIRAGLVSAAHDVSRGGLAVALAEMAAA 627
Query: 673 AN 674
+
Sbjct: 628 SG 629
Score = 48.5 bits (116), Expect = 1e-05
Identities = 30/145 (20%), Positives = 48/145 (33%), Gaps = 55/145 (37%)
Query: 257 DIFRNKLKRNPTSVECFDLAQSNSEH-----SRHWF----FKGKMIVDGIESDKCLFEMI 307
++ R L R P E + SEH S+ KG ++ G D
Sbjct: 7 ELIREILGREPNDTELAMFSAMWSEHCSYKSSKKLLKQFPTKGPNVIQGPGEDA------ 60
Query: 308 MDTTKHSNQNNVIKFNDNSSAIQGYRDLPAITPTNPGAPGPYTITNQDLDIIFTAETHNF 367
V+ D ++F E+HN
Sbjct: 61 ----------GVVDIGDG------------------------------YAVVFKMESHNH 80
Query: 368 PTGVSPFSGATTGTGGRIRDVQAVG 392
P+ + P++GA TG GG +RD+ ++G
Sbjct: 81 PSAIEPYNGAATGVGGILRDILSMG 105
>gnl|CDD|216008 pfam00586, AIRS, AIR synthase related protein, N-terminal domain.
This family includes Hydrogen expression/formation
protein HypE, AIR synthases EC:6.3.3.1, FGAM synthase
EC:6.3.5.3 and selenide, water dikinase EC:2.7.9.3. The
N-terminal domain of AIR synthase forms the dimer
interface of the protein, and is suggested as a putative
ATP binding domain.
Length = 96
Score = 45.6 bits (109), Expect = 3e-06
Identities = 12/57 (21%), Positives = 19/57 (33%), Gaps = 2/57 (3%)
Query: 358 IIFTAETHNFPTGVSPFSGATTGTGGRIRDVQAVGRGGNCIAGTAGYCVGNLNIPGY 414
TH + P+ G T G + D+ G +A G +G P +
Sbjct: 18 TTDGVVTHVHFAAIDPYDGGATAVAGNLSDL--AAMGAKPLALLDGLALGEGLDPEW 72
>gnl|CDD|184499 PRK14090, PRK14090, phosphoribosylformylglycinamidine synthase II;
Provisional.
Length = 601
Score = 49.5 bits (118), Expect = 4e-06
Identities = 19/40 (47%), Positives = 26/40 (65%)
Query: 353 NQDLDIIFTAETHNFPTGVSPFSGATTGTGGRIRDVQAVG 392
+ I F E+HN P+ + P++GA TG GG IRDV A+G
Sbjct: 58 DDYYSIAFKIESHNHPSAIEPYNGAATGVGGIIRDVLAMG 97
>gnl|CDD|130916 TIGR01857, FGAM-synthase, phosphoribosylformylglycinamidine
synthase, clade II. This model represents a
single-molecule form of
phosphoribosylformylglycinamidine synthase, also called
FGAM synthase, an enzyme of purine de novo biosynthesis.
This model represents a second clade of these enzymes
found in Clostridia, Bifidobacteria and Streptococcus
species. This enzyme performs the fourth step in IMP
biosynthesis (the precursor of all purines) from PRPP
[Purines, pyrimidines, nucleosides, and nucleotides,
Purine ribonucleotide biosynthesis].
Length = 1239
Score = 49.5 bits (118), Expect = 7e-06
Identities = 43/183 (23%), Positives = 66/183 (36%), Gaps = 42/183 (22%)
Query: 234 VALQEVNQKLGLAFDEWDLEYYTDIFRNKLKRNPTSVECFDLAQSNSEHSRHWFFKGKM- 292
L + + GLA DL++ D F+ + RNPT E L S+H RH F+ ++
Sbjct: 174 EDLAKFKAEQGLAMSLEDLKFIQDYFK-SIGRNPTETEIKVLDTYWSDHCRHTTFETELK 232
Query: 293 -------------------------IVDGIESDKCLFEMIMDTTKHSNQNNVIKFNDNSS 327
+ E L +M K+ +N + + S
Sbjct: 233 HVTFSDSKFQKQLKKAYEDYLAMREELGRSEKPVTLMDMATIFAKYLRKNGKLDDLEVSE 292
Query: 328 AIQG---YRDLPAITPTNPGAPGPYTITNQDLDIIFTAETHNFPTGVSPFSGATTGTGGR 384
I ++ + + ++F ETHN PT + PF GA T GG
Sbjct: 293 EINACSVEIEVD----VDGV--------KEPWLLMFKNETHNHPTEIEPFGGAATCIGGA 340
Query: 385 IRD 387
IRD
Sbjct: 341 IRD 343
>gnl|CDD|100027 cd00396, PurM-like, AIR (aminoimidazole ribonucleotide) synthase
related protein. This family includes Hydrogen
expression/formation protein HypE, AIR synthases, FGAM
(formylglycinamidine ribonucleotide) synthase and
Selenophosphate synthetase (SelD). The N-terminal domain
of AIR synthase forms the dimer interface of the
protein, and is suggested as a putative ATP binding
domain.
Length = 222
Score = 34.7 bits (80), Expect = 0.090
Identities = 13/57 (22%), Positives = 24/57 (42%), Gaps = 2/57 (3%)
Query: 358 IIFTAETHNFPTGVSPFSGATTGTGGRIRDVQAVGRGGNCIAGTAGYCVGNLNIPGY 414
+ + + N P ++P++G GG + D+ A+ G IA A + N
Sbjct: 2 LAMSTDGINPPLAINPWAGGRLAVGGAVNDIAAM--GARPIALLASLSLSNGLEVDI 56
Score = 32.8 bits (75), Expect = 0.40
Identities = 15/49 (30%), Positives = 22/49 (44%)
Query: 621 EVRGPSPDVEDAAALVRAFNVTQRLIQDGQVLSGHDISDGGLLICLLEM 669
V S ++ + L+ G V + HDI+DGGLL L E+
Sbjct: 105 RVIDSSGARPGDVLILTGVDAVLELVAAGDVHAMHDITDGGLLGTLPEL 153
>gnl|CDD|132899 cd07059, BMC_PduA, 1,2-propanediol utilization protein A (PduA),
Bacterial Micro-Compartment (BMC) domain. PduA is
encoded within the 1,2-propanediol utilization (pdu)
operon along with other homologous carboxysome shell
proteins PduB, B', J, K, T, and U. PduA is thought to be
required for the formation of the outer shell of
bacterial pdu polyhedral organelles which are involved
in coenzyme B12-dependent degradation of
1,2-propanediol. Although it has been suggested that
PduA might form hexamers and further assemble into the
flat facets of the polyhedral outer shell of pdu
organelles, like PduU does, at present no experimental
evidence directly supports this view.
Length = 85
Score = 30.2 bits (68), Expect = 0.67
Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 9/55 (16%)
Query: 619 LAEVRGPSPDVEDAAALVRAFNVTQRLIQDGQVLSGHDISDGGLLICLLEMDVGA 673
+ E +G +E A A+V+A NVT L G + GGL+ ++ DVGA
Sbjct: 4 MIETKGLVGAIEAADAMVKAANVT---------LVGKEQIGGGLVTVMVRGDVGA 49
>gnl|CDD|224580 COG1666, COG1666, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 165
Score = 31.6 bits (72), Expect = 0.75
Identities = 17/64 (26%), Positives = 28/64 (43%), Gaps = 3/64 (4%)
Query: 248 DEWDLEYYTDIFRNKLKRNPTSVECFDLAQSNSEHSRHWFFKGKMIVDGIESD--KCLFE 305
++ LE DI R+KL + S + D S + + GIES+ K + +
Sbjct: 56 SDFQLEQLKDILRSKLIKRGISGKALD-IPKEEVASGKTVRQEAKLKQGIESENAKKIVK 114
Query: 306 MIMD 309
+I D
Sbjct: 115 LIKD 118
>gnl|CDD|132885 cd07045, BMC_CcmK_like, Carbon dioxide concentrating mechanism K
(CcmK)-like proteins, Bacterial Micro-Compartment (BMC)
domain. Bacterial micro-compartments are primitive
protein-based organelles that sequester specific
metabolic pathways in bacterial cells. The prototypical
bacterial microcompartment is the carboxysome shell, a
bacterial polyhedral organelle which increase the
efficiency of CO2 fixation by encapsulating RuBisCO and
carbonic anhydrase. They can be divided into two types:
alpha-type carboxysomes (alpha-cyanobacteria and
proteobacteria) and beta-type carboxysomes
(beta-cyanobacteria). Potential functional differences
between the two types are not yet fully understood. In
addition to these proteins there are several homologous
shell proteins including those found in pdu organelles
involved in coenzyme B12-dependent degradation of
1,2-propanediol and eut organelles involved in the
cobalamin-dependent degradation of ethanolamine.
Structure evidence shows that several carboxysome shell
proteins and their homologs (Csos1A, CcmK1,2,4, and
PduU) exist as hexamers which might further assemble
into extended, tightly packed layers hypothesized to
represent the flat facets of the polyhedral organelles
outer shell. Although it has been suggested that other
homologous proteins in this family might also form
hexamers and play similar functional roles in the
construction of their corresponding organelle outer
shells at present no experimental evidence directly
supports this view.
Length = 84
Score = 29.8 bits (68), Expect = 0.81
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 9/55 (16%)
Query: 619 LAEVRGPSPDVEDAAALVRAFNVTQRLIQDGQVLSGHDISDGGLLICLLEMDVGA 673
L E RG +E A A ++A NVT L G++ GGL+ + DV A
Sbjct: 4 LIETRGLVAAIEAADAALKAANVT---------LVGYEKVGGGLVTVKITGDVAA 49
>gnl|CDD|234368 TIGR03835, termin_org_DnaJ, terminal organelle assembly protein
TopJ. This model describes TopJ (MG_200, CbpA), a DnaJ
homolog and probable assembly protein of the Mycoplasma
terminal organelle. The terminal organelle is involved
in both cytadherence and gliding motility [Cellular
processes, Chemotaxis and motility].
Length = 871
Score = 32.1 bits (72), Expect = 1.1
Identities = 22/78 (28%), Positives = 35/78 (44%), Gaps = 10/78 (12%)
Query: 210 PLTSFNHGI----KPDPWFYVDVMGKGKVALQEVNQKLGLA---FDEWDL---EYYTDIF 259
PL ++N GI P+ F V + G KV Q + + LGL +D+ L YY+ +
Sbjct: 756 PLVAYNGGIIDVFGPNKLFNVRIPGGIKVNDQVIFKDLGLTKTKYDKGSLIVHLYYSSVM 815
Query: 260 RNKLKRNPTSVECFDLAQ 277
+ + N + LA
Sbjct: 816 KKNDRTNVQVQQFNKLAL 833
>gnl|CDD|212551 cd11713, GINS_A_psf3, Alpha-helical domain of GINS complex protein
Psf3 (partner of Sld5 3). Psf3 is a component of GINS,
a tetrameric protein complex. Psf3 expression is up
regulated in malignant colon cancer and it might be
involved in cancer cell proliferation. GINS is a complex
of four subunits (Sld5, Psf1, Psf2 and Psf3) that is
involved in both initiation and elongation stages of
eukaryotic chromosome replication. Besides being
essential for the maintenance of genomic integrity, GINS
plays a central role in coordinating DNA replication
with cell cycle checkpoints and is involved in cell
growth. The eukaryotic GINS subunits are homologous and
homologs are also found in the archaea; the complex is
not found in bacteria. The four subunits of the complex
consist of two domains each, termed the alpha-helical
(A) and beta-strand (B) domains. The A and B domains of
Sld5/Psf1 are permuted with respect to Psf1/Psf3.
Length = 109
Score = 29.9 bits (68), Expect = 1.2
Identities = 19/62 (30%), Positives = 33/62 (53%), Gaps = 11/62 (17%)
Query: 253 EYYTDIFRNKLKRNPTSVECFDLAQSNSEHSRH-WFFK-GKMIVDGIESDKCLFEMIMDT 310
+ Y++ RN LK +PTSV DL H +F++ G ++ D+ L E++++T
Sbjct: 8 KIYSEKVRNALKADPTSV---DL------HKLSPYFYELGLKLLSLFPEDEELAEVLLET 58
Query: 311 TK 312
K
Sbjct: 59 FK 60
>gnl|CDD|215342 PLN02636, PLN02636, acyl-coenzyme A oxidase.
Length = 686
Score = 31.8 bits (72), Expect = 1.4
Identities = 25/75 (33%), Positives = 36/75 (48%), Gaps = 6/75 (8%)
Query: 600 WIDLSCGQHRVGGSALSQVLAEVRGPSPDVE-DAAALVRAFNVTQRLIQDGQVLSGHDIS 658
WI G V G + V A ++ P+ D + + V AF V R ++ QVL G +I
Sbjct: 217 WI----GNAAVHGK-FATVFARLKLPTHDSKGVSDMGVHAFIVPIRDMKTHQVLPGVEIR 271
Query: 659 DGGLLICLLEMDVGA 673
D G + L +D GA
Sbjct: 272 DCGHKVGLNGVDNGA 286
>gnl|CDD|180061 PRK05412, PRK05412, putative nucleotide-binding protein; Reviewed.
Length = 161
Score = 30.1 bits (69), Expect = 2.5
Identities = 14/61 (22%), Positives = 24/61 (39%), Gaps = 15/61 (24%)
Query: 248 DEWDLEYYTDIFRNKL-KRNPTSVECFDLAQSNSEHSRHWFFKGKM------IVDGIESD 300
++ L+ DI R+KL KR ++ D + S GK + GI+ +
Sbjct: 52 SDFQLKQVKDILRSKLIKRGI-DLKALD-YGKVEKAS------GKTVKQEVKLKQGIDQE 103
Query: 301 K 301
Sbjct: 104 L 104
>gnl|CDD|236026 PRK07482, PRK07482, hypothetical protein; Provisional.
Length = 461
Score = 30.8 bits (70), Expect = 2.6
Identities = 23/67 (34%), Positives = 26/67 (38%), Gaps = 11/67 (16%)
Query: 351 ITNQDLDIIFTAETH--NFPTGVSPFSGATTGTGGRIRDVQAVGRGGNCIAGTAG-YCVG 407
+ D D F TH + G P G G RI D Q G I AG YCV
Sbjct: 8 LLAWDRDHFFHPSTHLGDHARGELPGRIVEGGEGIRITDAQ----GRRYIDAFAGLYCV- 62
Query: 408 NLNIPGY 414
N+ GY
Sbjct: 63 --NV-GY 66
>gnl|CDD|153438 cd07969, OBF_DNA_ligase_I, The Oligonucleotide/oligosaccharide
binding (OB)-fold domain of ATP-dependent DNA ligase I
is a DNA-binding module that is part of the catalytic
core unit. ATP-dependent polynucleotide ligases
catalyze phosphodiester bond formation using nicked
nucleic acid substrates with the high energy nucleotide
of ATP as a cofactor in a three step reaction mechanism.
DNA ligases play a vital role in the diverse processes
of DNA replication, recombination and repair.
ATP-dependent ligases are present in many organisms such
as viruses, bacteriohages, eukarya, archaea and
bacteria. There are three classes of ATP-dependent DNA
ligases in eukaryotic cells (I, III and IV). This group
is composed of eukaryotic DNA ligase I, Sulfolobus
solfataricus DNA ligase and similar proteins. DNA ligase
I is required for the ligation of Okazaki fragments
during lagging-strand DNA synthesis and for base
excision repair (BER). ATP dependent DNA ligases have a
highly modular architecture consisting of a unique
arrangement of two or more discrete domains including a
DNA-binding domain, an adenylation
(nucleotidyltransferase (NTase)) domain, and an
oligonucleotide/oligosaccharide binding (OB)-fold
domain. The adenylation and C-terminal OB-fold domains
comprise a catalytic core unit that is common to most
members of the ATP-dependent DNA ligase family. The
catalytic core unit contains six conserved sequence
motifs (I, III, IIIa, IV, V and VI) that define this
family of related nucleotidyltransferases. The OB-fold
domain contacts the nicked DNA substrate and is required
for the ATP-dependent DNA ligase nucleotidylation step.
The RxDK motif (motif VI), which is essential for ATP
hydrolysis, is located in the OB-fold domain.
Length = 144
Score = 29.0 bits (66), Expect = 4.1
Identities = 8/30 (26%), Positives = 13/30 (43%)
Query: 196 ESFYDRMTECVYSSPLTSFNHGIKPDPWFY 225
E Y+ + E V + ++PD WF
Sbjct: 53 EELYESLKEHVIPKKPYRVDSSLEPDVWFE 82
>gnl|CDD|218096 pfam04461, DUF520, Protein of unknown function (DUF520). Family of
uncharacterized proteins.
Length = 160
Score = 29.0 bits (66), Expect = 4.7
Identities = 14/62 (22%), Positives = 23/62 (37%), Gaps = 15/62 (24%)
Query: 248 DEWDLEYYTDIFRNKL-KRNPTSVECFDLAQSNSEHSRHWFFKGKM------IVDGIESD 300
++ L+ DI R KL KR ++ D + S GK + GI+ +
Sbjct: 52 SDFQLKQVKDILRTKLIKRG-VDLKALD-FGKVEKAS------GKTVKQEVKLKQGIDQE 103
Query: 301 KC 302
Sbjct: 104 LA 105
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.318 0.136 0.419
Gapped
Lambda K H
0.267 0.0863 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 35,086,322
Number of extensions: 3435569
Number of successful extensions: 2509
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2464
Number of HSP's successfully gapped: 61
Length of query: 685
Length of database: 10,937,602
Length adjustment: 104
Effective length of query: 581
Effective length of database: 6,324,786
Effective search space: 3674700666
Effective search space used: 3674700666
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: 62 (27.4 bits)