RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 017329
(373 letters)
>gnl|CDD|233003 TIGR00512, salvage_mtnA, S-methyl-5-thioribose-1-phosphate
isomerase. The delineation of this family was based in
part on a discussion and neighbor-joining phylogenetic
study, by Kyrpides and Woese, of archaeal and other
proteins homologous to the alpha, beta, and delta
subunits of eukaryotic initiation factor 2B (eIF-2B), a
five-subunit molecule that catalyzes GTP recycling for
eIF-2. This clade is now recognized to include the
methionine salvage pathway enzyme MtnA [Amino acid
biosynthesis, Aspartate family].
Length = 331
Score = 496 bits (1279), Expect = e-177
Identities = 187/343 (54%), Positives = 232/343 (67%), Gaps = 12/343 (3%)
Query: 14 QSICYRRGSLQLLDQRKLPLETIYLEIRDSADGWSAIREMVVRGAPAIAMAAALSLAVEV 73
++I + RGSL+LLDQR LP E+ Y+E+ D AIR+M VRGAPAI + AA LA+
Sbjct: 1 RAIKWNRGSLELLDQRLLPHESEYIEVTTVEDVADAIRDMRVRGAPAIGIVAAYGLALAA 60
Query: 74 FNLNAFSGTAADAASFLGNKLEYLVSSRPTAVNLSDAAAKLKEIISKAAATASEANSVFQ 133
+ + + L KL+YLVSSRPTAVNLS A +++ + A A + +
Sbjct: 61 READ----EREEFKALLEEKLQYLVSSRPTAVNLSWALDRMRAALEAAKTVAD----IKE 112
Query: 134 AYIEAAEIMLKDDVATNKAIGSYGASFLQNQLKNSKFSVLTHCNTGSLATAGYGTALGVI 193
A + AE +L++D+ N+AIG GA+ ++ + VLTHCNTGSLATAGYGTALGVI
Sbjct: 113 ALLAEAERILEEDLEDNRAIGENGAALIKKGVAA-PLRVLTHCNTGSLATAGYGTALGVI 171
Query: 194 RALHSEGVLERAYCSETRPFNQGSRLTAFELVHDRIPATLIADSAAAALMKDGRVSAVIV 253
R+ H +G LE Y ETRP QG+RLTA+ELV + IPATLI DS AA LMK G V AVIV
Sbjct: 172 RSAHEKGRLEHVYADETRPRLQGARLTAWELVQEGIPATLITDSMAAHLMKHGEVDAVIV 231
Query: 254 GADRVAANGDTANKIGTYSLALCAKFHNILFYVAAPLTSIDLTLSSGQEIVIEERSAKEL 313
GADR+AANGDTANKIGTY LA+ AK H + FYVAAP ++IDL G EI IEER +E+
Sbjct: 232 GADRIAANGDTANKIGTYQLAVLAKHHGVPFYVAAPTSTIDLETKDGAEIPIEERPPEEV 291
Query: 314 LCSRGGLGEQVAASGISVWNPAFDVTPANLITGIITEKGVVTK 356
G ++A GI VWNPAFDVTPA LITGIITEKGV+T
Sbjct: 292 THVG---GVRIAPPGIDVWNPAFDVTPAELITGIITEKGVITP 331
>gnl|CDD|223260 COG0182, COG0182, Predicted translation initiation factor 2B
subunit, eIF-2B alpha/beta/delta family [Translation,
ribosomal structure and biogenesis].
Length = 346
Score = 408 bits (1051), Expect = e-143
Identities = 174/339 (51%), Positives = 214/339 (63%), Gaps = 13/339 (3%)
Query: 18 YRRGSLQLLDQRKLPLETIYLEIRDSADGWSAIREMVVRGAPAIAMAAALSLAVEVFNLN 77
GS++LLDQR LP E Y+E + D AI++MVVRGAPAI +AAA LA+
Sbjct: 9 KDDGSVKLLDQRLLPFEEKYVECKTYEDVAEAIKDMVVRGAPAIGVAAAYGLALAARESK 68
Query: 78 AFSGTAADAASFLGNKLEYLVSSRPTAVNLSDAAAKLKEIISKAAATASEANSVFQAYIE 137
S + L E L S+RPTAVNL A ++ +A S+ Q E
Sbjct: 69 NDS-KGEEFIEALEKAAETLKSTRPTAVNLFWALDRMLNAAKEAIEVKEPKESILQ---E 124
Query: 138 AAEIMLKDDVATNKAIGSYGASFLQNQLKNSKFSVLTHCNTGSLATAGYGTALGVIRALH 197
A EI ++D+ N+AIG GA L + VLTHCN G+LAT GYGTALGVIR+ H
Sbjct: 125 AEEI-AEEDLEANRAIGENGAELLPDGDT-----VLTHCNAGALATVGYGTALGVIRSAH 178
Query: 198 SEGVLERAYCSETRPFNQGSRLTAFELVHDRIPATLIADSAAAALMKDGRVSAVIVGADR 257
EG R + ETRP+ QG+RLTA+ELV D IP TLI D+AA LM+ G + AVIVGADR
Sbjct: 179 EEGKDIRVFADETRPYLQGARLTAWELVQDGIPVTLITDNAAGHLMQQGMIDAVIVGADR 238
Query: 258 VAANGDTANKIGTYSLALCAKFHNILFYVAAPLTSIDLTLSSGQEIVIEERSAKELLCSR 317
+AANGD ANKIGTY LA+ AK H I FYVAAPL++ID L SG++I IEER +E+L
Sbjct: 239 IAANGDVANKIGTYQLAVLAKHHGIPFYVAAPLSTIDFELKSGEDIPIEERDPEEVLEVG 298
Query: 318 GGLGEQVAASGISVWNPAFDVTPANLITGIITEKGVVTK 356
G ++A G+ +NPAFDVTP LITGIITEKGV T
Sbjct: 299 ---GVRIAPEGVEAYNPAFDVTPPELITGIITEKGVFTP 334
>gnl|CDD|235578 PRK05720, mtnA, methylthioribose-1-phosphate isomerase; Reviewed.
Length = 344
Score = 403 bits (1037), Expect = e-140
Identities = 165/344 (47%), Positives = 216/344 (62%), Gaps = 21/344 (6%)
Query: 15 SICYRRGSLQLLDQRKLPLETIYLEIRDSADGWSAIREMVVRGAPAIAMAAALSLAVEVF 74
+ ++ G++++LDQRKLP E Y+E+ + + AIR+MVVRGAPAI +AAA +A
Sbjct: 5 PVAWKDGAVRILDQRKLPHEVEYVELTTAEEVADAIRDMVVRGAPAIGIAAAYGMA---- 60
Query: 75 NLNAFSGTAADAASF---LGNKLEYLVSSRPTAVNLSDAAAKLKEIISKAAATASEANSV 131
L A + D F L YL +SRPTAVNL A ++ + A A
Sbjct: 61 -LAAREDASDDGEEFLKKLEEAAAYLAASRPTAVNLFWALDRM----REVLAPLPGAERK 115
Query: 132 FQAYIEAAEIMLKDDVATNKAIGSYGASFLQNQLKNSKFSVLTHCNTGSLATAGYGTALG 191
EA EI ++DV N+AIG +G + ++ +LTHCN G LATAGYGTAL
Sbjct: 116 AALEEEAIEIH-EEDVEINRAIGEHGLTLIRK-----GQGILTHCNAGWLATAGYGTALA 169
Query: 192 VIRALHSEGVLERAYCSETRPFNQGSRLTAFELVHDRIPATLIADSAAAALMKDGRVSAV 251
I A +G+ Y ETRP QG+RLTA+EL I T+I D+ AA LM+ G++ AV
Sbjct: 170 PIYAAKEKGIDIHVYADETRPRLQGARLTAWELYQAGIDVTVITDNMAAHLMQTGKIDAV 229
Query: 252 IVGADRVAANGDTANKIGTYSLALCAKFHNILFYVAAPLTSIDLTLSSGQEIVIEERSAK 311
IVGADR+AANGD ANKIGTY LA+ AK+H + FYVAAP ++IDLTL+ G+EI IEER +
Sbjct: 230 IVGADRIAANGDVANKIGTYQLAIAAKYHGVPFYVAAPSSTIDLTLADGKEIPIEERDPE 289
Query: 312 ELLCSRGGLGEQVAASGISVWNPAFDVTPANLITGIITEKGVVT 355
E+ G ++A G+ V+NPAFDVTPA LITGIITEKG+V
Sbjct: 290 EVTEVG---GVRIAPEGVKVYNPAFDVTPAELITGIITEKGIVA 330
>gnl|CDD|233008 TIGR00524, eIF-2B_rel, eIF-2B alpha/beta/delta-related
uncharacterized proteins. This model, eIF-2B_rel,
describes half of a superfamily, where the other half
consists of eukaryotic translation initiation factor 2B
(eIF-2B) subunits alpha, beta, and delta. It is unclear
whether the eIF-2B_rel set is monophyletic, or whether
they are all more closely related to each other than to
any eIF-2B subunit because the eIF-2B clade is highly
derived. Members of this branch of the family are all
uncharacterized with respect to function and are found
in the Archaea, Bacteria, and Eukarya, although a number
are described as putative translation intiation factor
components. Proteins found by eIF-2B_rel include at
least three clades, including a set of uncharacterized
eukaryotic proteins, a set found in some but not all
Archaea, and a set universal so far among the Archaea
and closely related to several uncharacterized bacterial
proteins [Unknown function, General].
Length = 303
Score = 329 bits (844), Expect = e-112
Identities = 148/320 (46%), Positives = 195/320 (60%), Gaps = 20/320 (6%)
Query: 40 IRDSADGWSAIREMVVRGAPAIAMAAALSLAVEVFNLNAFSGTAADAASF---LGNKLEY 96
R D AI+ MVVRGAPAI +AAA LA L A + F L ++
Sbjct: 1 CRTYEDVADAIKSMVVRGAPAIGVAAAYGLA-----LAARKIETDNVEEFKEDLEKAADF 55
Query: 97 LVSSRPTAVNLSDAAAKLKEIISKAAATASEANSVFQAYIEAAEIMLKDDVATNKAIGSY 156
L+S+RPTAVNL A E + +A ++ + A ++++D+ TN+ IG
Sbjct: 56 LLSTRPTAVNLFWAL----ERVLNSAENGESVEEAKESLLREAIEIIEEDLETNRKIGEN 111
Query: 157 GASFLQNQLKNSKFSVLTHCNTGSLATAGYGTALGVIRALHSEGVLERAYCSETRPFNQG 216
GA +++ +VLTHCN G+LAT+ YGTALGVIR+ +G R ETRP NQG
Sbjct: 112 GAKLIKDG-----DTVLTHCNAGALATSDYGTALGVIRSAWEDGKRIRVIACETRPRNQG 166
Query: 217 SRLTAFELVHDRIPATLIADSAAAALMKDGRVSAVIVGADRVAANGDTANKIGTYSLALC 276
SRLTA+EL+ D I TLI DS AA M+ G + AVIVGADR+A NGD ANKIGTY LA+
Sbjct: 167 SRLTAWELMQDGIDVTLITDSMAAYFMQKGEIDAVIVGADRIARNGDVANKIGTYQLAVL 226
Query: 277 AKFHNILFYVAAPLTSIDLTLSSGQEIVIEERSAKELLCSRGGLGEQVAASGISVWNPAF 336
AK I F+VAAPL++ D S G++IVIEER +E+ G ++A G+ V+NPAF
Sbjct: 227 AKEFRIPFFVAAPLSTFDTKTSCGEDIVIEERDPEEVAQVG---GVRIAPLGVKVYNPAF 283
Query: 337 DVTPANLITGIITEKGVVTK 356
D+TP +LI IITEKG++T
Sbjct: 284 DITPHDLIDAIITEKGIITP 303
>gnl|CDD|180362 PRK06036, PRK06036, translation initiation factor IF-2B subunit
alpha; Provisional.
Length = 339
Score = 280 bits (718), Expect = 1e-92
Identities = 144/337 (42%), Positives = 184/337 (54%), Gaps = 22/337 (6%)
Query: 21 GSLQLLDQRKLPLETIYLEIRDSADGWSAIREMVVRGAPAIAMAAALSLAVEVFNLNAFS 80
S++L+DQ LP E +E + AI+ + VRGAPA+ A +A L A
Sbjct: 11 NSVKLIDQTLLPEEYKVIECKTLESLCEAIKSLRVRGAPALGAAGGYGIA-----LAARL 65
Query: 81 GTAADAASF---LGNKLEYLVSSRPTAVNLSDAAAKLKEIISKAAATASEANSVFQAYIE 137
A D L E L S+RPTAVNLS + + KAA A + + +
Sbjct: 66 SKAKDVDELLKDLKVAAETLKSTRPTAVNLSWGV----DRVLKAALDAEDVEEIRDIALR 121
Query: 138 AAEIMLKDDVATNKAIGSYGASFLQNQLKNSKFSVLTHCNTGSLATAGYGTALGVIRALH 197
AE + ++DVA NK IG +GA L +VLTHCN G LA +GTALGVIR+
Sbjct: 122 EAERIAEEDVARNKLIGKHGAKLL-----EDGDTVLTHCNAGRLACVDWGTALGVIRSAV 176
Query: 198 SEGVLERAYCSETRPFNQGSRLTAFELVHDRIPATLIADSAAAALMKDGRVSAVIVGADR 257
+G + ETRP NQGSRLT +EL+ D IP TLI DS A +M+ G V VIVGADR
Sbjct: 177 EQGKEIKVIACETRPLNQGSRLTTWELMQDNIPVTLITDSMAGIVMRQGMVDKVIVGADR 236
Query: 258 VAANGDTANKIGTYSLALCAKFHNILFYVAAPLTSIDLTLSSGQEIVIEERSAKELLCSR 317
+ + NKIGTY+ ++ AK H I FYVAAPL++ D G + IEER EL R
Sbjct: 237 ITRDA-VFNKIGTYTHSVLAKEHEIPFYVAAPLSTFDFEGWEG-SVKIEERDPDEL---R 291
Query: 318 GGLGEQVAASGISVWNPAFDVTPANLITGIITEKGVV 354
Q+A + V+NPAFD TP +T IITEKGV
Sbjct: 292 YCGKTQIAPKDVPVYNPAFDATPMENVTAIITEKGVF 328
>gnl|CDD|169386 PRK08334, PRK08334, translation initiation factor IF-2B subunit
beta; Validated.
Length = 356
Score = 270 bits (691), Expect = 2e-88
Identities = 150/344 (43%), Positives = 210/344 (61%), Gaps = 20/344 (5%)
Query: 14 QSICYRRGSLQLLDQRKLPLETIYLEIRDSADGWSAIREMVVRGAPAIAMAAALSLAVEV 73
+S+ Y G + ++DQR LP E +E+R + AI+ M VRGAPAI AAA LA
Sbjct: 15 RSVEYEEGKVYMIDQRLLPREFKVIELRTVEEVAEAIKTMTVRGAPAIGAAAAFGLA--- 71
Query: 74 FNLNAFSGTAADAASFLGN---KLEYLVSSRPTAVNLSDAAAKLKEIISKAAATASEANS 130
L A + A F+ E L ++RPTAVNL A ++K+++ + +
Sbjct: 72 --LYAETSKAKTKDEFMDGFYKAYETLKNTRPTAVNLFWALNRIKKLVEEHLE--DPLDE 127
Query: 131 VFQAYIEAAEIMLKDDVATNKAIGSYGASFLQNQLKNSKFSVLTHCNTGSLATAGYGTAL 190
+ + +E A+ + +DV N +G YGA L + +VLTHCN GSLAT GT
Sbjct: 128 IKRLIVEEAQKIADEDVEANLRMGHYGAEVL------PEGNVLTHCNAGSLATVHLGTVG 181
Query: 191 GVIRALHSEGVLERAYCSETRPFNQGSRLTAFELVHDRIPATLIADSAAAALMKDGRVSA 250
V+R +H +G L+ + ETRP QG+RL+A+E +D IP LI+D+ A +M+ G+V A
Sbjct: 182 AVLRVMHKDGTLKLLWVDETRPVLQGARLSAWEYHYDGIPLKLISDNMAGFVMQQGKVDA 241
Query: 251 VIVGADRVAANGDTANKIGTYSLALCAKFHNILFYVAAPLTSIDLTLSSGQEIVIEERSA 310
+IVGADR+ ANGD ANKIGTY+LA+ AK H I F+ APL++ID++L SG+EI IEERS
Sbjct: 242 IIVGADRIVANGDFANKIGTYTLAVLAKEHGIPFFTVAPLSTIDMSLKSGKEIPIEERSP 301
Query: 311 KELLCSRGGLGEQVAASGISVWNPAFDVTPANLITGIITEKGVV 354
+E+L G A + V+NPAFDVTP +TGIIT++GVV
Sbjct: 302 EEVLTCGGCR----IAPDVDVYNPAFDVTPHKYLTGIITDRGVV 341
>gnl|CDD|216240 pfam01008, IF-2B, Initiation factor 2 subunit family. This family
includes initiation factor 2B alpha, beta and delta
subunits from eukaryotes, initiation factor 2B subunits
1 and 2 from archaebacteria and some proteins of unknown
function from prokaryotes. Initiation factor 2 binds to
Met-tRNA, GTP and the small ribosomal subunit. Members
of this family have also been characterized as
5-methylthioribose- 1-phosphate isomerases, an enzyme of
the methionine salvage pathway. The crystal structure of
Ypr118w, a non-essential, low-copy number gene product
from Saccharomyces cerevisiae, reveals a dimeric protein
with two domains and a putative active site cleft.
Length = 281
Score = 263 bits (675), Expect = 8e-87
Identities = 128/302 (42%), Positives = 174/302 (57%), Gaps = 22/302 (7%)
Query: 54 VVRGAPAIAMAAALSLAVEVFNLNAFSGTAADAASFLGNKLEYLVSSRPTAVNLSDAAAK 113
VRG+PAIA+AA L + + +A + T A+ L + +E+L+S+RPTAV+L +A +
Sbjct: 1 KVRGSPAIAIAALEGLLLVI--QDARTPTVAELKEQLRSAIEFLISARPTAVSLGNAIDR 58
Query: 114 LKEIISKAAATASEANSVFQAYIEAAEIMLKDDVATNKAIGSYGASFLQNQLKNSKFSVL 173
L IIS+ +++ ++ IEAA+ + + + IG+ A ++ ++L
Sbjct: 59 LLRIISELHSSSDV-EEAKESLIEAADEFIDEIEEARRKIGAIAAELIK-----DGDTIL 112
Query: 174 THCNTGSLATAGYGTALGVIRALHSEGVLERAYCSETRPFNQGSRLTAFELVHDRIPATL 233
THCN+G T LGV+RA H EG R +E+RP QG RLTA ELV IP TL
Sbjct: 113 THCNSG--------TVLGVLRAAHKEGKRFRVIVTESRPRLQG-RLTAKELVQAGIPVTL 163
Query: 234 IADSAAAALMKDGRVSAVIVGADRVAANGDTANKIGTYSLALCAKFHNILFYVAAPLTSI 293
I DSA +M+ V VIVGADR+ ANG ANKIGTY LAL AK HN+ FYV A
Sbjct: 164 ITDSAVGYVMQ--EVDKVIVGADRILANGGIANKIGTYQLALLAKAHNVPFYVVAETYKF 221
Query: 294 DLTLSSGQEIVIEERSAKELLCSRGGLGEQVAASGISVWNPAFDVTPANLITGIITEKGV 353
D ++I IEER +E+L G ++A + V NPAFD TP LIT IITE GV
Sbjct: 222 DPRFPLDEDIFIEERDPEEVLYRT---GVRIAPENLKVRNPAFDYTPPELITLIITEVGV 278
Query: 354 VT 355
+
Sbjct: 279 LP 280
>gnl|CDD|168237 PRK05772, PRK05772, translation initiation factor IF-2B subunit
alpha; Provisional.
Length = 363
Score = 245 bits (627), Expect = 1e-78
Identities = 132/357 (36%), Positives = 184/357 (51%), Gaps = 36/357 (10%)
Query: 13 LQSICYRRGSLQLLDQRKLPLETIYLEIRDSADGWSAIREMVVRGAPAIAMAAALSLAVE 72
L I ++ +L LLDQ LP ET+Y++++ + AIR M VRGAPAI + A + +
Sbjct: 16 LLPIIWKDNTLTLLDQSLLPFETVYVDLKTVEEVALAIRNMQVRGAPAIGITAGYGMVLA 75
Query: 73 VFNLNAFSGTAADAASFLGNKLEYLVSSRPTAVNLSDAAAKL----KEIISKAAATA--- 125
+ N T DA L L S+RPTAVNL A +++ K + A +
Sbjct: 76 LIENNV--KTLDDAIRELTRAKTILDSARPTAVNLVWATSRMLNKAKNTVESGNAKSVNE 133
Query: 126 ------SEANSVFQAYIEAAEIMLKDDVATNKAIGSYGASFLQNQLKNSKFSVLTHCNTG 179
EA +F+ +A EI +G YG L + +VLT CN G
Sbjct: 134 LIELLKVEAKKIFEEEYDA-EI----------QMGLYGLEKLND-----GDTVLTQCNAG 177
Query: 180 SLATA-GYGTALGVIRALHSEGVLERAYCSETRPFNQGSRLTAFELVHDRIPATLIADSA 238
LAT G GTAL ++ + G+ ETRP+ QGSRLT +EL+ + I TLI D+A
Sbjct: 178 GLATGTGLGTALAPVKLAKALGMSVSVIAPETRPWLQGSRLTVYELMEEGIKVTLITDTA 237
Query: 239 AAALMKDGRVSAVIVGADRVAANGDTANKIGTYSLALCAKFHNILFYVAAPLTSIDLTLS 298
+M V+ V+VGADR+ +G NKIGT+ A+ A I FY AP ++ DL S
Sbjct: 238 VGLVMYKDMVNNVMVGADRILRDGHVFNKIGTFKEAVIAHELGIPFYALAPTSTFDLK-S 296
Query: 299 SGQEIVIEERSAKELLCSRGGLGEQVAASGISVWNPAFDVTPANLITGIITEKGVVT 355
++ IEER E+ R G + ++V+NP FDVTP ITGIITEKG++
Sbjct: 297 DVNDVKIEERDPNEVRTIR---GVPITPEDVNVYNPVFDVTPPKYITGIITEKGIIY 350
>gnl|CDD|180547 PRK06371, PRK06371, translation initiation factor IF-2B subunit
alpha; Provisional.
Length = 329
Score = 240 bits (613), Expect = 6e-77
Identities = 141/342 (41%), Positives = 188/342 (54%), Gaps = 34/342 (9%)
Query: 12 SLQSICYRRGSLQLLDQRKLPLETIYLEIRDSADGWSAIREMVVRGAPAIAMAAALSLAV 71
+L+++ Y G ++L+DQRKLP + E ++S D AI+ MVVRGAPAI + AA LA+
Sbjct: 11 TLKAVWYEDGEVKLIDQRKLPDKIEIFEAKNSDDVAYAIKNMVVRGAPAIGVTAAYGLAM 70
Query: 72 EVFNLNAFSGTAADAASFLGNKLEYLVSSRPTAVNLSDAAAKLKEIISKAAATASEANSV 131
N G D A +E + S+RPTA +L A + S +
Sbjct: 71 ASKN-----GENMDEA------VEKIRSTRPTAYDLFKAIRYMN----------SNEFDM 109
Query: 132 FQAYIEAAEIMLKDDVATNKAIGSYGASFLQNQLKNSKFSVLTHCNTGSLATAGYGTALG 191
A A EI + +K IG YG N+L + +LTHCN G+LA +GTAL
Sbjct: 110 NAARRYAMEI-----IGRSKKIGEYG-----NELIKNGARILTHCNAGALAVVDWGTALA 159
Query: 192 VIRALHSEGVLERAYCSETRPFNQGSRLTAFELVHDRIPATLIADSAAAALMKDGRVSAV 251
IR H G + ETRP QG+RLTA+EL + I +IAD+AA M+ + V
Sbjct: 160 PIRIAHRNGKNIFVFVDETRPRLQGARLTAWELAQEGIDHAIIADNAAGYFMRKKEIDLV 219
Query: 252 IVGADRVAANGDTANKIGTYSLALCAKFHNILFYVAAPLTSIDLTLSSGQEIVIEERSAK 311
IVGADR+A+NGD ANKIGTY A+ AK + I FYVAAP ++ D ++ SG EI IEER
Sbjct: 220 IVGADRIASNGDFANKIGTYEKAVLAKVNGIPFYVAAPGSTFDFSIKSGDEIPIEERDEN 279
Query: 312 ELLCSRGGLGEQVAASGISVWNPAFDVTPANLITGIITEKGV 353
E+L G ++ NPAFDVTP +TG ITE G+
Sbjct: 280 EVLEIN---GCRIGPQESHARNPAFDVTPNEYVTGFITEYGI 318
>gnl|CDD|236282 PRK08535, PRK08535, translation initiation factor IF-2B subunit
delta; Provisional.
Length = 310
Score = 185 bits (473), Expect = 3e-56
Identities = 115/332 (34%), Positives = 159/332 (47%), Gaps = 56/332 (16%)
Query: 36 IYLEIRDSADGWSAIREMVVRGAPAIAMAAALSLA-----VEVFNLNAFSGTAADAASFL 90
+ E+ ++A+ I+ M +RGA IA AAA +L + + F AA
Sbjct: 3 VMPEVLETAEK---IKTMEIRGAGRIARAAAEALKDQAEKSDAESPEEFKAEMRAAA--- 56
Query: 91 GNKLEYLVSSRPTAVNLSDAAAKLKEIISKAAATASEANSVFQAYIEAAEIMLKDDVATN 150
L+S+RPTAV+L +A ++ ++ + E ++ IE AE ++
Sbjct: 57 ----NILISTRPTAVSLPNA---VRYVMRYYSGETVEE--ARESVIERAEEFIESSENAV 107
Query: 151 KAIGSYGASFLQNQLKNSKFSVLTHCNTGSLATAGYGTALGVIRALHSEGVLERAYCSET 210
+ IG GA ++++ ++THCN S A AL VI+ H +G +ET
Sbjct: 108 EKIGEIGA----KRIRDG-DVIMTHCN--SSA------ALSVIKTAHEQGKDIEVIATET 154
Query: 211 RPFNQGSRLTAFELVHDRIPATLIADSAAAALMKDGRVSAVIVGADRVAANGDTANKIGT 270
RP NQG +TA EL IP TLI DSA MKD V V+VGAD + ANG NKIGT
Sbjct: 155 RPRNQG-HITAKELAEYGIPVTLIVDSAVRYFMKD--VDKVVVGADAITANGAVINKIGT 211
Query: 271 YSLALCAKFHNILFYVAA------PLTSIDLTLSSGQEIVIEERSAKELLCS--RGGLGE 322
+AL A + F VAA P T + G+ + IEER E+L L
Sbjct: 212 SQIALAAHEARVPFMVAAETYKFSPKTLL------GELVEIEERDPTEVLPEEILAKLP- 264
Query: 323 QVAASGISVWNPAFDVTPANLITGIITEKGVV 354
G+ V NPAFDVTP I IITE G +
Sbjct: 265 -----GVKVRNPAFDVTPPEYIDAIITEIGAI 291
>gnl|CDD|188057 TIGR00511, ribulose_e2b2, ribose-1,5-bisphosphate isomerase, e2b2
family. The delineation of this family was based
originally, in part, on a discussion and
neighbor-joining phylogenetic study by Kyrpides and
Woese of archaeal and other proteins homologous to the
alpha, beta, and delta subunits of eukaryotic initiation
factor 2B (eIF-2B), a five-subunit molecule that
catalyzes GTP recycling for eIF-2. Recently, Sato, et
al. assigned the function ribulose-1,5 bisphosphate
isomerase [Energy metabolism, Other].
Length = 301
Score = 161 bits (410), Expect = 4e-47
Identities = 111/326 (34%), Positives = 157/326 (48%), Gaps = 40/326 (12%)
Query: 39 EIRDSADGWSAIREMVVRGAPAIAMAAALSL-----AVEVFNLNAFSGTAADAASFLGNK 93
E+ ++A+ IR M +RGA IA AAA +L + + F AA
Sbjct: 1 EVLETAE---KIRTMEIRGAGRIARAAAAALREQAEKSDAASPEEFRAEMRAAA------ 51
Query: 94 LEYLVSSRPTAVNLSDAAAKLKEIISKAAATASEANSVFQAYIEAAEIMLKDDVATNKAI 153
L+S+RPTAV+L +A L+ ++ + E Q+ IE A+ + + I
Sbjct: 52 -NILISTRPTAVSLPNA---LRYVLKYMSGADVETLR--QSVIERADEFINRSEKAQERI 105
Query: 154 GSYGASFLQNQLKNSKFSVLTHCNTGSLATAGYGTALGVIRALHSEGVLERAYCSETRPF 213
G GA ++++ ++THCN+ + AL VI+ +G +ETRP
Sbjct: 106 GEIGA----KRIRDGD-VIMTHCNSEA--------ALSVIKTAFEQGKDIEVIVTETRPR 152
Query: 214 NQGSRLTAFELVHDRIPATLIADSAAAALMKDGRVSAVIVGADRVAANGDTANKIGTYSL 273
NQG +TA EL IP TLI DSAA MK+ V V+VGAD + ANG NKIGT L
Sbjct: 153 NQG-HITAKELRDYGIPVTLIVDSAARYYMKE--VDHVVVGADAITANGAVINKIGTSQL 209
Query: 274 ALCAKFHNILFYVAAPLTSIDLTLSSGQEIVIEERSAKELLCSRGGLGEQVAASGISVWN 333
AL A+ + F VAA +G+ + IEER E+L + + V N
Sbjct: 210 ALAAREARVPFMVAAETYKFHPKTITGELVEIEERDPTEVLDEE----DLKQLGNVKVRN 265
Query: 334 PAFDVTPANLITGIITEKGVVTKAGA 359
PAFDVTP + IITE+G + A
Sbjct: 266 PAFDVTPPEYVDAIITERGQIPPEMA 291
>gnl|CDD|224105 COG1184, GCD2, Translation initiation factor 2B subunit, eIF-2B
alpha/beta/delta family [Translation, ribosomal
structure and biogenesis].
Length = 301
Score = 140 bits (356), Expect = 3e-39
Identities = 94/307 (30%), Positives = 129/307 (42%), Gaps = 36/307 (11%)
Query: 50 IREMVVRGAPAIAMAAALSLAVEVFNLNAFSGTAADAASF---LGNKLEYLVSSRPTAVN 106
++ M +RGA IA+AAA E + A A + E LV +RPTAV+
Sbjct: 13 LKSMEIRGASWIAIAAA-----EALEILASDSQAPTVEELIDAIRELSETLVKARPTAVS 67
Query: 107 LSDAAAKLKEIISKAAATASEANSVFQAYIEAAEIMLKDDVATNKAIGSYGASFLQNQLK 166
L + + S + I+AA+ + + I GA + +
Sbjct: 68 LGNLIRFVLRDSSGGDKENRRQSL-----IKAAQEFIDRVEKAKERIAEIGAERIHDGDV 122
Query: 167 NSKFSVLTHCNTGSLATAGYGTALGVIRALHSEGVLERAYCSETRPFNQGSRLTAFELVH 226
+LTH + T L V++ G + +E+RP +G R+ A EL
Sbjct: 123 -----ILTHSFSK--------TVLEVLKTAADRGKRFKVIVTESRPRGEG-RIMAKELRQ 168
Query: 227 DRIPATLIADSAAAALMKDGRVSAVIVGADRVAANGDTANKIGTYSLALCAKFHNILFYV 286
IP T+I DSA A M RV V+VGAD + ANG NKIGT LAL A+ + FYV
Sbjct: 169 SGIPVTVIVDSAVGAFMS--RVDKVLVGADAILANGALVNKIGTSPLALAARELRVPFYV 226
Query: 287 AAPLTSIDLTLSSGQEIVIEERSAKELLCSRGGLGEQVAASGISVWNPAFDVTPANLITG 346
A + IE R E+ + V NPAFDVTP I
Sbjct: 227 VAESYKFVPKTLLDTLVEIELRDPLEVAREEP-------LGNLKVRNPAFDVTPPEYIDA 279
Query: 347 IITEKGV 353
IITE G+
Sbjct: 280 IITELGI 286
>gnl|CDD|169387 PRK08335, PRK08335, translation initiation factor IF-2B subunit
alpha; Validated.
Length = 275
Score = 72.5 bits (178), Expect = 2e-14
Identities = 60/204 (29%), Positives = 91/204 (44%), Gaps = 31/204 (15%)
Query: 151 KAIGSYGASFLQNQLKNSKFSVLTHCNTGSLATAGYGTALGVIRALHSEGVLERAYCSET 210
+ IG+ G+ +L + ++TH S ++A L +++ +G + +E+
Sbjct: 97 REIGNIGS-----ELIDDGDVIITH----SFSSA----VLEILKTAKRKGKRFKVILTES 143
Query: 211 RPFNQGSRLTAFELVHDRIPATLIADSAAAALMKDGRVSAVIVGADRVAANGDTANKIGT 270
P +G L A EL I +I D+ K+ ++ +VGAD V +G NK GT
Sbjct: 144 APDYEGLAL-ANELEFLGIEFEVITDAQLGLFAKEATLA--LVGADNVTRDGYVVNKAGT 200
Query: 271 YSLALCAKFHNILFYVAAPLTSIDLTLSSGQEIVIEERSAKELLCSRGGLGEQVAASGIS 330
Y LAL + + FYVAA L S E+ + ER A G
Sbjct: 201 YLLALACHDNGVPFYVAAETFKFHPELKSE-EVELVER--------------PYARQGHR 245
Query: 331 VWNPAFDVTPANLITGIITEKGVV 354
V N FDVTP + GIITE G++
Sbjct: 246 VRNVLFDVTPWKYVRGIITELGIL 269
>gnl|CDD|235788 PRK06372, PRK06372, translation initiation factor IF-2B subunit
delta; Provisional.
Length = 253
Score = 68.4 bits (167), Expect = 4e-13
Identities = 47/161 (29%), Positives = 66/161 (40%), Gaps = 17/161 (10%)
Query: 196 LHSEGVLERAYCSETRPFNQGSRLTAFELVHDRIPATLIADSAAAALMKDGRVSAVIVGA 255
+ S ++ Y E+RP +G A LV I L+ D++ + + V AVIVG+
Sbjct: 103 ISSSEKIKSVYILESRPMLEG-IDMAKLLVKSGIDVVLLTDASMCEAVLN--VDAVIVGS 159
Query: 256 DRVAANGDTANKIGTYSLALCAKFHNILFYVAAPLTSIDLTLSSGQEIVIEERSAKEL-L 314
D V +G +K GT+ LALCA++ FY LT+S E +
Sbjct: 160 DSVLYDGGLIHKNGTFPLALCARYLKKPFY--------SLTISMKIERNFLYSTYPNFKN 211
Query: 315 CSRGGLGEQVAASGISVWNPAFDVTPANLITGIITEKGVVT 355
I N FD TP +LI I E G V
Sbjct: 212 HPCSEWNI-----DIPCINRYFDKTPPDLIDYYINENGFVK 247
>gnl|CDD|226471 COG3962, COG3962, Acetolactate synthase [Amino acid transport and
metabolism].
Length = 617
Score = 33.5 bits (77), Expect = 0.19
Identities = 28/122 (22%), Positives = 42/122 (34%), Gaps = 15/122 (12%)
Query: 48 SAIREMVVRGAPAIAMAAALSLAVEVFNLNAFSGTAAD-AASFLGNKLEYLVSSRPTAVN 106
+ R M V PA L+L +V A D SF ++ + P
Sbjct: 165 ALPRAMRVMTDPADCGPVTLALCQDV------QAEAYDYPESFFEKRVWRIRRPPPDERE 218
Query: 107 LSDAAAKLKE-----IISKAAATASEANSVFQAYIEAAEIMLKDDVATNKAIGSYGASFL 161
L+DAAA +K I++ S A +A+ E I + V T +
Sbjct: 219 LADAAALIKSAKKPLIVAGGGVLYSGAREALRAFAETHGIPV---VETQAGKSALAWDHP 275
Query: 162 QN 163
N
Sbjct: 276 LN 277
>gnl|CDD|188219 TIGR02428, pcaJ_scoB_fam, 3-oxoacid CoA-transferase, B subunit.
Various members of this family are characterized as the
B subunits of succinyl-CoA:3-ketoacid-CoA transferase
(EC 2.8.3.5), beta-ketoadipate:succinyl-CoA transferase
(EC 2.8.3.6), acetyl-CoA:acetoacetate CoA transferase
(EC 2.8.3.8), and butyrate-acetoacetate CoA-transferase
(EC 2.8.3.9). This represents a very distinct clade with
strong sequence conservation within the larger family
defined by pfam01144. The A subunit represents a
different clade in pfam01144.
Length = 207
Score = 30.7 bits (70), Expect = 0.86
Identities = 15/39 (38%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 229 IPATLIADSAAA-ALMKDGRVSAVIVGADRVAANGDTAN 266
+P DSA + A+++ G V ++GA +V+ NGD AN
Sbjct: 75 LPGASYFDSADSFAMIRGGHVDVAVLGALQVSENGDLAN 113
>gnl|CDD|240549 cd13144, MATE_like_4, Uncharacterized subfamily of the multidrug
and toxic compound extrusion (MATE) proteins. The
integral membrane proteins from the MATE family are
involved in exporting metabolites across the cell
membrane and are responsible for multidrug resistance
(MDR) in many bacteria and animals. A number of family
members are involved in the synthesis of peptidoglycan
components in bacteria.
Length = 434
Score = 30.3 bits (69), Expect = 1.6
Identities = 18/54 (33%), Positives = 24/54 (44%), Gaps = 3/54 (5%)
Query: 47 WSAIREMVVRGAPAIAMAAALSLAVEVFN--LNAFSGTAADAASFLGNKLEYLV 98
I+E+ G P+I M A S+ V N L F TA A + KL+ V
Sbjct: 229 LRIIKEIYAVGLPSIIMQAISSVMVFGLNKILAGFGPTAV-AVFGIYFKLQSFV 281
>gnl|CDD|239984 cd04611, CBS_pair_PAS_GGDEF_DUF1_assoc, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains in association with a PAS domain, a GGDEF
(DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain
downstream. PAS domains have been found to bind ligands,
and to act as sensors for light and oxygen in signal
transduction. The GGDEF domain has been suggested to be
homologous to the adenylyl cyclase catalytic domain and
is thought to be involved in regulating cell surface
adhesiveness in bacteria. CBS is a small domain
originally identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The interface
between the two CBS domains forms a cleft that is a
potential ligand binding site. The CBS pair coexists
with a variety of other functional domains. It has been
proposed that the CBS domain may play a regulatory role,
although its exact function is unknown.
Length = 111
Score = 28.3 bits (64), Expect = 2.5
Identities = 10/27 (37%), Positives = 19/27 (70%), Gaps = 2/27 (7%)
Query: 230 PATLIADSAAAALMKDGRVSAVIVGAD 256
P T +A+ AA+ M++ R+S+++V D
Sbjct: 8 PDTSLAE--AASRMRERRISSIVVVDD 32
>gnl|CDD|237110 PRK12472, PRK12472, hypothetical protein; Provisional.
Length = 508
Score = 29.1 bits (65), Expect = 3.9
Identities = 29/112 (25%), Positives = 40/112 (35%), Gaps = 10/112 (8%)
Query: 41 RDSADGWSAIREMVVRGAPAIAMAAALSLAVEVFNLNAFSGTAADAASFLGNKLEYLVSS 100
R++ D A E + A A A A L + L ADA +K
Sbjct: 197 REAEDAARAADE--AKTAAAAAAREAAPLKASLRKLERAKA-RADAELKRADKAL----- 248
Query: 101 RPTAVNLSDAAAKLKEIISKAAATASEANSVFQAYIEAAEIMLKDDVATNKA 152
A +A A+ +E KAA A+EA + AE AT +A
Sbjct: 249 --AAAKTDEAKARAEERQQKAAQQAAEAATQLDTAKADAEAKRAAAAATKEA 298
>gnl|CDD|216819 pfam01973, MAF_flag10, Protein of unknown function DUF115. This
family of archaebacterial proteins has no known
function.
Length = 170
Score = 28.0 bits (63), Expect = 5.3
Identities = 18/66 (27%), Positives = 28/66 (42%), Gaps = 10/66 (15%)
Query: 231 ATLIA-DSAAAALMKDGRVSAVIVGADRVAANGDTANKIGTYSLALCAKFHNILFYVAAP 289
A +IA DSA AL+K G ++V DR + + + K +I V A
Sbjct: 50 AVIIAADSALKALLKHGIKPDIVVSLDRQEISYEFFKEA--------FKEGDIPL-VHAH 100
Query: 290 LTSIDL 295
+ +L
Sbjct: 101 GVNPEL 106
>gnl|CDD|222736 pfam14399, BtrH, A predicted NlpC/p60-like peptidase. Members of
this family are often found in the gene neighborhood, or
fused to, non-ribosomal peptide synthetases. They are
predicted to function as trans-peptidases in peptide
metabolite biosynthesis.
Length = 329
Score = 28.5 bits (64), Expect = 6.1
Identities = 17/84 (20%), Positives = 26/84 (30%), Gaps = 21/84 (25%)
Query: 11 NSLQSICYRRGSLQ---LLDQRKLPLETIYL-----------EIRDSADGWSAIREMVVR 56
L L LL R P E L E + W ++E++
Sbjct: 40 AGLGFSYLPSAELDPPPLLGGRGKPFEIKNLAKRLGIKLKERETSSPEEAWEELKELLDA 99
Query: 57 GAPAIAMAAALSLAVEVFNLNAFS 80
G P I L ++++ L F
Sbjct: 100 GRPVI-------LQLDMYYLPYFP 116
>gnl|CDD|240411 PTZ00419, PTZ00419, valyl-tRNA synthetase-like protein;
Provisional.
Length = 995
Score = 28.4 bits (64), Expect = 7.4
Identities = 12/24 (50%), Positives = 16/24 (66%), Gaps = 4/24 (16%)
Query: 22 SLQLLDQRKLPLETIYLE--IRDS 43
SL L D KLP +T++L +RDS
Sbjct: 560 SLHLTD--KLPFKTVFLHAMVRDS 581
>gnl|CDD|216786 pfam01921, tRNA-synt_1f, tRNA synthetases class I (K). This family
includes only lysyl tRNA synthetases from prokaryotes.
Length = 357
Score = 28.0 bits (63), Expect = 7.7
Identities = 8/24 (33%), Positives = 14/24 (58%)
Query: 307 ERSAKELLCSRGGLGEQVAASGIS 330
+ A++L+ RG GE + +GI
Sbjct: 5 DEEAEKLIKERGKKGEILVETGIG 28
>gnl|CDD|133112 cd06255, M14_ASTE_ASPA_like_5, Peptidase M14 Succinylglutamate
desuccinylase (ASTE)/aspartoacylase (ASPA)-like;
uncharacterized subgroup. A functionally
uncharacterized subgroup of the Succinylglutamate
desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily
which is part of the M14 family of
metallocarboxypeptidases. ASTE catalyzes the fifth and
last step in arginine catabolism by the arginine
succinyltransferase pathway, and aspartoacylase (ASPA,
also known as aminoacylase 2, and ACY-2; EC:3.5.1.15)
cleaves N-acetyl L-aspartic acid (NAA) into aspartate
and acetate. NAA is abundant in the brain, and
hydrolysis of NAA by ASPA may help maintain white
matter. ASPA is an NAA scavenger in other tissues.
Mutations in the gene encoding ASPA cause Canavan
disease (CD), a fatal progressive neurodegenerative
disorder involving dysmyelination and spongiform
degeneration of white matter in children. This enzyme
binds zinc which is necessary for activity. Measurement
of elevated NAA levels in urine is used in the diagnosis
of CD.
Length = 293
Score = 27.8 bits (62), Expect = 9.1
Identities = 19/88 (21%), Positives = 28/88 (31%), Gaps = 12/88 (13%)
Query: 178 TGSLATAGYGTALGVIRA---LHSEGVLERAYCSETRPFN----QGSRLT-AFELVHDRI 229
T +A A + GV LH+ + + Y R+T AF R
Sbjct: 98 TQQMAHALFEEVRGVADYLVDLHTMTTISKRYTVYKVYPGVTEENLERMTRAFGSKLYRP 157
Query: 230 ----PATLIADSAAAALMKDGRVSAVIV 253
L+ + A L V A +V
Sbjct: 158 DVGGKGELLPGNIAGVLDYQCLVPAFMV 185
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
0.316 0.129 0.355
Gapped
Lambda K H
0.267 0.0694 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,541,108
Number of extensions: 1815318
Number of successful extensions: 1977
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1909
Number of HSP's successfully gapped: 49
Length of query: 373
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 275
Effective length of database: 6,590,910
Effective search space: 1812500250
Effective search space used: 1812500250
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: 60 (27.0 bits)