RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 022694
(293 letters)
>gnl|CDD|178104 PLN02486, PLN02486, aminoacyl-tRNA ligase.
Length = 383
Score = 599 bits (1545), Expect = 0.0
Identities = 251/289 (86%), Positives = 271/289 (93%), Gaps = 1/289 (0%)
Query: 1 MFTNRYLQDAFKVPLVIQLTDDEKCMWKNLSVEESQRLARENAKDIIACGFDVTKTFIFS 60
MFT +YLQDAFKVPLVIQLTDDEK +WKNLSVEESQRLARENAKDIIACGFDV +TFIFS
Sbjct: 96 MFT-KYLQDAFKVPLVIQLTDDEKFLWKNLSVEESQRLARENAKDIIACGFDVERTFIFS 154
Query: 61 DFDYVGGAFYKNMVKVAKCVTYNKVVGIFGFTGEDHIGKVSFPPVQAVPSFPSSFPHLFS 120
DFDYVGGAFYKNMVK+AKCVT N+V GIFGF+GED+IGK+SFP VQA PSFPSSFPHLF
Sbjct: 155 DFDYVGGAFYKNMVKIAKCVTLNQVRGIFGFSGEDNIGKISFPAVQAAPSFPSSFPHLFG 214
Query: 121 GKDHLRCLIPCAIDQDPYFRMTRDVAPRIGYHKPALIESSFFPALQGETGKMSASDPNSA 180
GKD LRCLIPCAIDQDPYFRMTRDVAPR+GY+KPALIES FFPALQGE+GKMSASDPNSA
Sbjct: 215 GKDKLRCLIPCAIDQDPYFRMTRDVAPRLGYYKPALIESRFFPALQGESGKMSASDPNSA 274
Query: 181 IYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLEDDAELEHIKK 240
IYVTD+ K IKNKINKYAFSGGQ++VE HR+LGANLEVDIP KYL+FFLEDDAELE IKK
Sbjct: 275 IYVTDTPKEIKNKINKYAFSGGQDTVEEHRELGANLEVDIPWKYLNFFLEDDAELERIKK 334
Query: 241 EYGAGGMLTGEVKQRLAKVLTELVERHQVARAAVTDEMVDAFMAVRPLP 289
EYG+G MLTGEVK+RL +VLTE+VERHQ ARAAVTDEMVDAFMAVRPLP
Sbjct: 335 EYGSGRMLTGEVKKRLIEVLTEIVERHQRARAAVTDEMVDAFMAVRPLP 383
>gnl|CDD|232888 TIGR00233, trpS, tryptophanyl-tRNA synthetase. This model
represents tryptophanyl-tRNA synthetase. Some members of
the family have a pfam00458 domain amino-terminal to the
region described by this model [Protein synthesis, tRNA
aminoacylation].
Length = 327
Score = 258 bits (660), Expect = 4e-85
Identities = 101/296 (34%), Positives = 148/296 (50%), Gaps = 29/296 (9%)
Query: 1 MFTNRYLQDAFKVPLVIQLTDDEKCMWKNLSVEESQRLAREN-AKDIIACGFDVTKTFIF 59
+ T Q F V L I + D K ++ R ARE A D +A G D KTFIF
Sbjct: 24 IQTKWLQQ--FGVELFICIADLHAITVKQTD-PDALRKAREELAADYLAVGLDPEKTFIF 80
Query: 60 SDFDYVGGAFYKNMVKVAKCVTYNKVVGIFGFTGEDH-----IGKVSFPPVQAVPSFPSS 114
DY Y+ ++ VT+ ++ + F + IG +S+P +QA
Sbjct: 81 LQSDY--PEHYELAWLLSCQVTFGELKRMTQFKDKSQAENVPIGLLSYPVLQAADILLYQ 138
Query: 115 FPHLFSGKDHLRCLIPCAIDQDPYFRMTRDVAPRIG------YHKPALIESSFFPALQGE 168
L+P IDQD + +TRD+A R + KP + S FFP L G
Sbjct: 139 AD-----------LVPVGIDQDQHLELTRDLAERFNKKFKNFFPKPESLISKFFPRLMGL 187
Query: 169 TG-KMSASDPNSAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSF 227
+G KMS SDPNSAI++TD+ K IK KI K A GG+ ++ HR+ + + +YLSF
Sbjct: 188 SGKKMSKSDPNSAIFLTDTPKQIKKKIRKAATDGGRVTLFEHREKPGVPNLLVIYQYLSF 247
Query: 228 FLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVLTELVERHQVARAAVTDEMVDAFM 283
FL DD +L+ I + Y +G + GE K+ L +VL E ++ Q RA + +E++D +
Sbjct: 248 FLIDDDKLKEIYEAYKSGKLGYGECKKALIEVLQEFLKEIQERRAEIAEEILDKIL 303
>gnl|CDD|173903 cd00806, TrpRS_core, catalytic core domain of tryptophanyl-tRNA
synthetase. Tryptophanyl-tRNA synthetase (TrpRS)
catalytic core domain. TrpRS is a homodimer which
attaches Tyr to the appropriate tRNA. TrpRS is a class I
tRNA synthetases, so it aminoacylates the 2'-OH of the
nucleotide at the 3' end of the tRNA. The core domain is
based on the Rossman fold and is responsible for the
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. It contains class I characteristic
HIGH and KMSKS motifs, which are involved in ATP
binding.
Length = 280
Score = 255 bits (654), Expect = 8e-85
Identities = 96/272 (35%), Positives = 133/272 (48%), Gaps = 31/272 (11%)
Query: 6 YLQDAFKVPLVIQLTDDEKCMWKNLSVEESQRLARENAKDIIACGFDVTKTFIFSDFDYV 65
+LQ+A L + D K L EE ++ RENAKD +ACG D K+ IF D
Sbjct: 26 WLQEA-GYELFFFIADLHALTVKQLDPEELRQNTRENAKDYLACGLDPEKSTIFFQSDV- 83
Query: 66 GGAFYKNMVKVAKCVTYNKVVGIFGFT------GEDHIGKVSFPPVQAVPSFPSSFPHLF 119
Y+ ++ VT+ ++ + GF +IG +++P +QA
Sbjct: 84 -PEHYELAWLLSCVVTFGELERMTGFKDKSAQGESVNIGLLTYPVLQAADILLYKA---- 138
Query: 120 SGKDHLRCLIPCAIDQDPYFRMTRDVAPRIGYH------KPALIES--SFFPALQGETGK 171
CL+P IDQDP+ +TRD+A R KPA + S +F P LQG + K
Sbjct: 139 -------CLVPVGIDQDPHLELTRDIARRFNKLYGEIFPKPAALLSKGAFLPGLQGPSKK 191
Query: 172 MSASDPNSAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLED 231
MS SDPN+AI++TDS K IK KI K A GG+ HR+ G V V+ S F D
Sbjct: 192 MSKSDPNNAIFLTDSPKEIKKKIMKAATDGGR---TEHRRDGGGPGVSNLVEIYSAFFND 248
Query: 232 DAELEHIKKEYGAGGMLTGEVKQRLAKVLTEL 263
D E EY +GG+ GE K+ LA+ + E
Sbjct: 249 DDEELEEIDEYRSGGLGYGECKKLLAEAIQEF 280
>gnl|CDD|237037 PRK12285, PRK12285, tryptophanyl-tRNA synthetase; Reviewed.
Length = 368
Score = 246 bits (631), Expect = 3e-80
Identities = 102/284 (35%), Positives = 157/284 (55%), Gaps = 19/284 (6%)
Query: 5 RYLQDAFKVPLVIQLTDDEKCMWKNLSVEESQRLARENAKDIIACGFDVTKTFIFSDFDY 64
++ Q+ F + I + DDE + LS EE++ A E D+IA GFD KT I+ +
Sbjct: 91 KWHQE-FGANVYIPIADDEAYAARGLSWEETREWAYEYILDLIALGFDPDKTEIYFQSEN 149
Query: 65 VGGAFYKNM-VKVAKCVTYNKVVGIFGFTGEDHIGKVSFPPVQAVPSFPSSFPHLFSGKD 123
++ ++AK V ++++ I+GFTGE +IG + +P QA P L G
Sbjct: 150 ---IKVYDLAFELAKKVNFSELKAIYGFTGETNIGHIFYPATQAADIL---HPQLEEGP- 202
Query: 124 HLRCLIPCAIDQDPYFRMTRDVAPRI----GYHKPALIESSFFPALQGETGKMSASDPNS 179
L+P IDQDP+ R+TRD+A R+ G+ KP+ F P L G GKMS+S P S
Sbjct: 203 -KPTLVPVGIDQDPHIRLTRDIAERLHGGYGFIKPSSTYHKFMPGLTG--GKMSSSKPES 259
Query: 180 AIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFL-EDDAELEHI 238
AIY+TD + +K KI K A +GG+ ++E RKLG + + + L + L EDD EL+ I
Sbjct: 260 AIYLTDDPETVKKKIMK-ALTGGRATLEEQRKLGGEPDECVVYELLLYHLEEDDKELKEI 318
Query: 239 KKEYGAGGMLTGEVKQRLAKVLTELVERHQVARAAVTDEMVDAF 282
+E +G +L GE K+ A+ + E ++ HQ R E+++ +
Sbjct: 319 YEECRSGELLCGECKKEAAEKIAEFLKEHQEKREEA-REILEKY 361
>gnl|CDD|223258 COG0180, TrpS, Tryptophanyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 314
Score = 203 bits (519), Expect = 4e-64
Identities = 79/298 (26%), Positives = 126/298 (42%), Gaps = 35/298 (11%)
Query: 4 NRYLQDAFKVPLVIQLTDDEKCMWKNLSVEES-QRLARENAKDIIACGFDVTKTFIFSDF 62
N L + D + EE ++ RE A D +A G D K+ IF
Sbjct: 29 NWVLLQEEYYECFFFIADLHAITVRQDPTEEDLRQATREVAADYLAVGLDPEKSTIFLQS 88
Query: 63 DYVGGAFYKNMVKVAKCVTYNKVVGIFGFTGED-------HIGKVSFPPVQAVPSFPSSF 115
+ + ++ + ++ + F + IG +++P +QA
Sbjct: 89 EV--PEHAELAWLLSCVTNFGELERMTQFKDKSAKKGESIPIGLLTYPVLQAADIL---- 142
Query: 116 PHLFSGKDHLRCLIPCAIDQDPYFRMTRDVAPRIGYH------KPALI--ESSFFPALQG 167
L+ L+P DQD + +TRD+A R + P + + + P L G
Sbjct: 143 --LYQA-----TLVPVGEDQDQHLELTRDIARRFNHLYGEVFPLPEALISKVARLPGLDG 195
Query: 168 ETGKMSASDPNSAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSF 227
GKMS SDPNSAI++ D K I+ KI K A G ++ +RK G EV + S
Sbjct: 196 P-GKMSKSDPNSAIFLLDDPKTIRKKIKKAATDG--PTLIEYRK-GGKPEVCNLFEIYSA 251
Query: 228 FLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVLTELVERHQVARAAVTDEMVDAFMAV 285
F EDD+ LE I+ EY G + GE K+ LA+ + E ++ Q R + ++ +
Sbjct: 252 FFEDDSILE-IEAEYRGGELGCGECKKELAEAIQEFLKPIQERREELREDP-AYLDDI 307
>gnl|CDD|236286 PRK08560, PRK08560, tyrosyl-tRNA synthetase; Validated.
Length = 329
Score = 85.7 bits (213), Expect = 3e-19
Identities = 55/180 (30%), Positives = 83/180 (46%), Gaps = 29/180 (16%)
Query: 31 SVEESQRLARENAKDIIACGFDVTKT-FIF-SDF----DYVGGAFYKNMVKVAKCVTYNK 84
+EE +++A N K A G D KT F+ S+F +Y ++K+AK T +
Sbjct: 80 DLEEIRKVAEYNKKVFEALGLDPDKTEFVLGSEFQLDKEYWL-----LVLKLAKNTTLAR 134
Query: 85 V---VGIFGFTGEDH-IGKVSFPPVQAVPSFPSSFPHLFSGKDHLRCLIPCA-IDQDPYF 139
+ I G E+ + K+ +P +Q F +L I +DQ
Sbjct: 135 ARRSMTIMGRRMEEPDVSKLVYPLMQVADIF------------YLDVDIAVGGMDQRKIH 182
Query: 140 RMTRDVAPRIGYHKPALIESSFFPALQGETGKMSASDPNSAIYVTDSAKAIKNKINKYAF 199
+ R+V P++GY KP I + L G KMS S P SAI+V DS + I+ KI K A+
Sbjct: 183 MLAREVLPKLGYKKPVCIHTPLLTGLDGGGIKMSKSKPGSAIFVHDSPEEIRRKIKK-AY 241
>gnl|CDD|216003 pfam00579, tRNA-synt_1b, tRNA synthetases class I (W and Y).
Length = 291
Score = 74.6 bits (184), Expect = 2e-15
Identities = 58/253 (22%), Positives = 96/253 (37%), Gaps = 35/253 (13%)
Query: 31 SVEESQRLAR---ENAKDIIACGFDVTKTFIFSDFDYVGGAFYKNMVKV-AKCVTYNKVV 86
S E ENAK +ACG D K+ I ++ D++ + + + + +
Sbjct: 56 SEERKLLSREEVLENAKAQLACGLDPEKSEIVNNSDWLE---HLELAWLLRDLGNHFSLN 112
Query: 87 GIFGFTG----EDHIGKVSF-----PPVQAVPSFPSSFPHLFSGKDHLRCLIPCAIDQDP 137
+ F +S P +QA + L D L P DQ
Sbjct: 113 RMLQFKDVKKRLKQNPGISLGEFTYPLLQA-----ADILLLK--AD----LQPGGSDQWG 161
Query: 138 YFRMTRDVAPRIGYHKPALIESSFFPALQGETG--KMSASDPNSAIYVTDSAKAIKNKIN 195
+ + RD+A R P L G G KMS S NSAI++ D +++ KI
Sbjct: 162 HIELGRDLARRFNKKVFKKPVGLTNPLLTGLDGGKKMSKSAGNSAIFLDDEKESVYKKI- 220
Query: 196 KYAFSGGQESVELHRKLGANLEVDIPV-KYLSFFLEDDA--ELEHIKKEYGAGGMLTGEV 252
+ A++ E+ + L E+ + L FL E E + G + G++
Sbjct: 221 QKAYTDPDR--EVRKDLKLFTELSNEEIEILEAFLGKGPKREAEELLAREVTGLVHGGDL 278
Query: 253 KQRLAKVLTELVE 265
K+ A+ + L+E
Sbjct: 279 KKAAAEAVNALLE 291
>gnl|CDD|234866 PRK00927, PRK00927, tryptophanyl-tRNA synthetase; Reviewed.
Length = 333
Score = 65.5 bits (161), Expect = 3e-12
Identities = 46/149 (30%), Positives = 66/149 (44%), Gaps = 14/149 (9%)
Query: 128 LIPCAIDQDPYFRMTRDVAPRIGYH------KP-ALI--ESSFFPALQGETGKMSASDPN 178
L+P DQ + +TRD+A R P LI + L G T KMS SDPN
Sbjct: 141 LVPVGEDQKQHLELTRDIARRFNNLYGEVFPVPEPLIPKVGARVMGLDGPTKKMSKSDPN 200
Query: 179 --SAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLEDDAELE 236
+ I + D K I KI K A + + E+ L EV + S + +E
Sbjct: 201 DNNTINLLDDPKTIAKKIKK-AVTDSERLREIRYDLPNKPEVSNLLTIYSALSGE--SIE 257
Query: 237 HIKKEYGAGGMLTGEVKQRLAKVLTELVE 265
++ EY AGG G+ K+ LA+ + E +
Sbjct: 258 ELEAEYEAGGKGYGDFKKDLAEAVVEFLA 286
>gnl|CDD|183400 PRK12282, PRK12282, tryptophanyl-tRNA synthetase II; Reviewed.
Length = 333
Score = 60.6 bits (148), Expect = 1e-10
Identities = 44/147 (29%), Positives = 68/147 (46%), Gaps = 15/147 (10%)
Query: 128 LIPCAIDQDPYFRMTRDVAPRIG--YHKPALIE-------SSFFPALQGETGKMSASDPN 178
L+P DQ P TR++ R Y L+E + P L G+ KMS S N
Sbjct: 145 LVPVGDDQLPMIEQTREIVRRFNSLYGTDVLVEPEALLPEAGRLPGLDGK-AKMSKSLGN 203
Query: 179 SAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLEDDAELEHI 238
AIY++D A IK K+ ++ + + + +E ++ YL F D AE+ +
Sbjct: 204 -AIYLSDDADTIKKKVMS-MYT---DPNHIRVEDPGKVEGNVVFTYLDAFDPDKAEVAEL 258
Query: 239 KKEYGAGGMLTGEVKQRLAKVLTELVE 265
K Y GG+ + K+ L +VL EL+
Sbjct: 259 KAHYQRGGLGDVKCKRYLEEVLQELLA 285
>gnl|CDD|173902 cd00805, TyrRS_core, catalytic core domain of tyrosinyl-tRNA
synthetase. Tyrosinyl-tRNA synthetase (TyrRS) catalytic
core domain. TyrRS is a homodimer which attaches Tyr to
the appropriate tRNA. TyrRS is a class I tRNA
synthetases, so it aminoacylates the 2'-OH of the
nucleotide at the 3' end of the tRNA. The core domain is
based on the Rossman fold and is responsible for the
ATP-dependent formationof the enzyme bound
aminoacyl-adenylate. It contains the class I
characteristic HIGH and KMSKS motifs, which are involved
in ATP binding.
Length = 269
Score = 48.8 bits (117), Expect = 1e-06
Identities = 34/122 (27%), Positives = 53/122 (43%), Gaps = 22/122 (18%)
Query: 143 RDVAPRIGYHKPALIESSFFPALQGETGKMSASDPNSA-IYVTDSAKAIKNKINKYAFSG 201
RD+ ++GY K + + L G GKMS S+ N+ V DS + KI AF
Sbjct: 169 RDLIRKLGYKKVVGLTTPLLTGLDG--GKMSKSEGNAIWDPVLDSPYDVYQKIRN-AFDP 225
Query: 202 GQESVELHRKLGANLEVDIPVKYLSFFLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVLT 261
+K +F D E+E +++E+ G L + K+ LA+ LT
Sbjct: 226 DVLEF---------------LKLFTFL--DYEEIEELEEEHAEGP-LPRDAKKALAEELT 267
Query: 262 EL 263
+L
Sbjct: 268 KL 269
>gnl|CDD|240282 PTZ00126, PTZ00126, tyrosyl-tRNA synthetase; Provisional.
Length = 383
Score = 47.0 bits (112), Expect = 5e-06
Identities = 19/45 (42%), Positives = 25/45 (55%)
Query: 152 HKPALIESSFFPALQGETGKMSASDPNSAIYVTDSAKAIKNKINK 196
KP ++ P L KMS SDPNSAI++ DS + + KI K
Sbjct: 238 KKPIILSHHMLPGLLEGQEKMSKSDPNSAIFMEDSEEDVNRKIKK 282
>gnl|CDD|223240 COG0162, TyrS, Tyrosyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 401
Score = 37.2 bits (87), Expect = 0.008
Identities = 30/150 (20%), Positives = 47/150 (31%), Gaps = 36/150 (24%)
Query: 141 MTRDVAPRIGYHKPALIESSFFPALQGE-------TGKMSASDPNSAIYVTDSAKAIKNK 193
RD+ R+G K + + L G+ S+ S I++
Sbjct: 196 AGRDLIRRLGQKKVVGLTTPLLTGLDGKKMGKSEGGAVWLDSEKTSPYDFYQYWMNIEDA 255
Query: 194 INKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLE-DDAELEHIKKEYGAGGMLTGEV 252
K ++L E+E I+K G E
Sbjct: 256 DVK--------------------------RFLKLLTFLSLEEIEEIEKYVLKGPEPR-EA 288
Query: 253 KQRLAKVLTELVERHQVARAAVTDEMVDAF 282
K+ LAK +T+LV + A AA +E F
Sbjct: 289 KKLLAKEVTKLVHGEEAAEAAE-EEFEKLF 317
>gnl|CDD|173541 PTZ00348, PTZ00348, tyrosyl-tRNA synthetase; Provisional.
Length = 682
Score = 36.8 bits (85), Expect = 0.013
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 1/63 (1%)
Query: 133 IDQDPYFRMTRDVAPRIGYH-KPALIESSFFPALQGETGKMSASDPNSAIYVTDSAKAIK 191
+DQ + R+ IG KP ++ L+ KMS SDP+SAI++ D+ + +
Sbjct: 183 LDQRKVNMLAREYCDLIGRKLKPVILSHHMLAGLKQGQAKMSKSDPDSAIFMEDTEEDVA 242
Query: 192 NKI 194
KI
Sbjct: 243 RKI 245
>gnl|CDD|215478 PLN02886, PLN02886, aminoacyl-tRNA ligase.
Length = 389
Score = 35.9 bits (83), Expect = 0.018
Identities = 25/92 (27%), Positives = 36/92 (39%), Gaps = 23/92 (25%)
Query: 128 LIPCAIDQDPYFRMTRDVAPRI-------------GYHKPAL-IESSFFP-------ALQ 166
L+P DQ + +TRD+A R+ G + + P +L
Sbjct: 187 LVPVGEDQKQHLELTRDIAERVNNLYGGRKWKKLGGRGGSVFKVPEALIPPAGARVMSLT 246
Query: 167 GETGKMSASDPN--SAIYVTDSAKAIKNKINK 196
T KMS S P+ S I + D I NKI +
Sbjct: 247 DGTSKMSKSAPSDQSRINLLDPPDVIANKIKR 278
>gnl|CDD|224465 COG1548, COG1548, Predicted transcriptional regulator/sugar kinase
[Transcription / Carbohydrate transport and metabolism].
Length = 330
Score = 30.9 bits (70), Expect = 0.72
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 2/32 (6%)
Query: 253 KQRLAKVLTELVERHQVARAAV--TDEMVDAF 282
K RL + L E+V + V V T E+ DAF
Sbjct: 38 KDRLEETLKEIVHKDNVDYVGVVMTAELADAF 69
>gnl|CDD|236054 PRK07573, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 640
Score = 30.9 bits (71), Expect = 0.89
Identities = 12/51 (23%), Positives = 25/51 (49%), Gaps = 5/51 (9%)
Query: 164 ALQGETGKMSASDPNSAIYVTDSAKAIKNKINKYAFSGGQESVE-LHRKLG 213
A T K+S P ++ ++++I++ G+ +V+ HR+LG
Sbjct: 463 ADTIGTPKVSTDHPE----FKEAEAEVQDRIDRLLNIKGKRTVDSFHRELG 509
>gnl|CDD|220664 pfam10267, Tmemb_cc2, Predicted transmembrane and coiled-coil 2
protein. This family of transmembrane coiled-coil
containing proteins is conserved from worms to humans.
Its function is unknown.
Length = 387
Score = 29.8 bits (67), Expect = 1.6
Identities = 40/172 (23%), Positives = 63/172 (36%), Gaps = 27/172 (15%)
Query: 106 QAVPSFPSSFPHL----FSGKDHLRCLIPCAIDQDPYFRMTRDVAPRIGYHKPALIESSF 161
QAV S P F L F D++ L +D + PR L+ S
Sbjct: 115 QAVVSKPREFASLIRNKFGSADNIAHL------KDSLEDGGPEENPRNLSGSATLVLSPK 168
Query: 162 FPALQGETGKMSASDPNSAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIP 221
+ + S+ +SA + SA A N + + Q+ KL L +I
Sbjct: 169 YGSDDS-------SECSSA--TSSSAGANSNSGSGPGSAVAQQQSLNLDKLLEELR-EIK 218
Query: 222 VKYLSFFLEDDAEL--EHIKKEYGAGGMLTGEVK---QRLAKVLTELVERHQ 268
LE+ E E ++++Y E + +RL + L +L E HQ
Sbjct: 219 EGQSR--LEESYERLKEQLQRDYQYITQSLQEERYRYERLEEQLNDLTELHQ 268
>gnl|CDD|202477 pfam02936, COX4, Cytochrome c oxidase subunit IV. Cytochrome c
oxidase, a 13 sub-unit complex, EC:1.9.3.1 is the
terminal oxidase in the mitochondrial electron
transport chain. This family is composed of cytochrome
c oxidase subunit IV. The Dictyostelium member of this
family is called COX VI. The yeast protein MTC3 appears
to be the yeast COX IV subunit.
Length = 142
Score = 28.5 bits (64), Expect = 2.1
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 14 PLVIQLTDDEKCMWKNLSVEESQRLAR 40
L++ L + EK WK+LS+EE + L R
Sbjct: 31 ELIMALREKEKGDWKSLSLEEKKALYR 57
>gnl|CDD|221242 pfam11816, DUF3337, Domain of unknown function (DUF3337). This
family of proteins are functionally uncharacterized.
This family is only found in eukaryotes. This presumed
domain is typically between 285 to 342 amino acids in
length.
Length = 320
Score = 28.7 bits (64), Expect = 3.3
Identities = 18/70 (25%), Positives = 28/70 (40%), Gaps = 17/70 (24%)
Query: 221 PVKYLSFFLE--DDAELEHIKKEYGAGG--------MLTGEVKQRLAKVLTELVERHQVA 270
P K +SF L+ D + +K + G ML R+ K+L + ER +
Sbjct: 211 PPK-ISFTLQPWDGSLPPLVKPDPINEGNSRLNAPRML------RVKKILAYVAERFEPD 263
Query: 271 RAAVTDEMVD 280
+ T EM
Sbjct: 264 PESRTSEMKK 273
>gnl|CDD|215101 PLN00203, PLN00203, glutamyl-tRNA reductase.
Length = 519
Score = 28.9 bits (65), Expect = 3.3
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 243 GAGGMLTGEVKQRLAKVLTEL--VERHQVARAAVTDEMVDAFMAVRPLPNMFD 293
GAG M VK ++K T++ V R + AA+ +E D + +PL M
Sbjct: 273 GAGKMGKLLVKHLVSKGCTKMVVVNRSEERVAALREEFPDVEIIYKPLDEMLA 325
>gnl|CDD|140293 PTZ00267, PTZ00267, NIMA-related protein kinase; Provisional.
Length = 478
Score = 28.8 bits (64), Expect = 4.0
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 222 VKYLSFFLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVL 260
VK+ F DD L + EYG+GG L ++KQRL + L
Sbjct: 128 VKHFDDFKSDDKLL--LIMEYGSGGDLNKQIKQRLKEHL 164
>gnl|CDD|130743 TIGR01682, moaD, molybdopterin converting factor, subunit 1,
non-archaeal. This model describes MoaD. It excludes
archaeal homologs, since many Archaea have two MoaD-like
proteins, suggesting two different functions. The Pfam
model pfam02597 describes both the thiamine biosynthesis
protein ThiS and this protein, MoaD, a subunit (together
with MoaE, pfam02391) of the molybdopterin converting
factor. Both ThiS and MoaD are involved in sulfur
transfer reactions. Distribution of this family appears
limited to species that also have a member of pfam02391,
but a number of Archaea have two different members,
suggesting functionally distinct subtypes. The
C-terminal Gly-Gly of this model is critical to function
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Molybdopterin].
Length = 80
Score = 26.5 bits (59), Expect = 5.4
Identities = 18/67 (26%), Positives = 25/67 (37%), Gaps = 1/67 (1%)
Query: 222 VKYLSF-FLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVLTELVERHQVARAAVTDEMVD 280
+K L F L + A + E GE+K+ LAK EL AV +E V
Sbjct: 1 IKVLYFARLREQAGTDEETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVT 60
Query: 281 AFMAVRP 287
+
Sbjct: 61 DDALLNE 67
>gnl|CDD|213208 cd03241, ABC_RecN, ATP-binding cassette domain of RecN. RecN
ATPase involved in DNA repair; similar to ABC
(ATP-binding cassette) transporter nucleotide-binding
domain; ABC transporters are a large family of proteins
involved in the transport of a wide variety of different
compounds including sugars, ions, peptides, and more
complex organic molecules. The nucleotide binding domain
shows the highest similarity between all members of the
family. ABC transporters are a subset of nucleotide
hydrolases that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
Length = 276
Score = 27.6 bits (62), Expect = 7.9
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 248 LTGEVKQRLAKVLTELVERHQV 269
++GEV Q + K L EL HQV
Sbjct: 205 ISGEVAQAVGKKLKELSRSHQV 226
>gnl|CDD|215420 PLN02785, PLN02785, Protein HOTHEAD.
Length = 587
Score = 27.8 bits (62), Expect = 8.5
Identities = 8/33 (24%), Positives = 11/33 (33%)
Query: 92 TGEDHIGKVSFPPVQAVPSFPSSFPHLFSGKDH 124
G+ H +P + SF SS S
Sbjct: 21 QGKSHFTPYRYPFIDKASSFSSSSSSSSSSGGD 53
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
0.321 0.137 0.407
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,261,131
Number of extensions: 1473271
Number of successful extensions: 1558
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1529
Number of HSP's successfully gapped: 35
Length of query: 293
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 197
Effective length of database: 6,679,618
Effective search space: 1315884746
Effective search space used: 1315884746
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)