RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 022791
(292 letters)
>gnl|CDD|178104 PLN02486, PLN02486, aminoacyl-tRNA ligase.
Length = 383
Score = 604 bits (1560), Expect = 0.0
Identities = 252/288 (87%), Positives = 271/288 (94%)
Query: 1 MFTKYLQDAFKVPLVIQLTDDEKCMWKNLSVEESQRLARENAKDIIACGFDVTKTFIFSD 60
MFTKYLQDAFKVPLVIQLTDDEK +WKNLSVEESQRLARENAKDIIACGFDV +TFIFSD
Sbjct: 96 MFTKYLQDAFKVPLVIQLTDDEKFLWKNLSVEESQRLARENAKDIIACGFDVERTFIFSD 155
Query: 61 FDYVGGAFYKNMVKVAKCVTYNKVVGIFGFTGEDHIGKVSFPPVQAVPSFPSSFPHLFSG 120
FDYVGGAFYKNMVK+AKCVT N+V GIFGF+GED+IGK+SFP VQA PSFPSSFPHLF G
Sbjct: 156 FDYVGGAFYKNMVKIAKCVTLNQVRGIFGFSGEDNIGKISFPAVQAAPSFPSSFPHLFGG 215
Query: 121 KDHLRCLIPCAIDQDPYFRMTRDVAPRIGYHKPALIESSFFPALQGETGKMSASDPNSAI 180
KD LRCLIPCAIDQDPYFRMTRDVAPR+GY+KPALIES FFPALQGE+GKMSASDPNSAI
Sbjct: 216 KDKLRCLIPCAIDQDPYFRMTRDVAPRLGYYKPALIESRFFPALQGESGKMSASDPNSAI 275
Query: 181 YVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLEDDAELEHIKKE 240
YVTD+ K IKNKINKYAFSGGQ++VE HR+LGANLEVDIP KYL+FFLEDDAELE IKKE
Sbjct: 276 YVTDTPKEIKNKINKYAFSGGQDTVEEHRELGANLEVDIPWKYLNFFLEDDAELERIKKE 335
Query: 241 YGAGGMLTGEVKQRLAKVLTELVERHQVARAAVTDEMVDAFMAVRPLP 288
YG+G MLTGEVK+RL +VLTE+VERHQ ARAAVTDEMVDAFMAVRPLP
Sbjct: 336 YGSGRMLTGEVKKRLIEVLTEIVERHQRARAAVTDEMVDAFMAVRPLP 383
>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 = 259 bits (664), Expect = 2e-86
Identities = 97/276 (35%), Positives = 134/276 (48%), Gaps = 31/276 (11%)
Query: 1 MFTKYLQDAFKVPLVIQLTDDEKCMWKNLSVEESQRLARENAKDIIACGFDVTKTFIFSD 60
F +LQ+A L + D K L EE ++ RENAKD +ACG D K+ IF
Sbjct: 22 RFWVWLQEA-GYELFFFIADLHALTVKQLDPEELRQNTRENAKDYLACGLDPEKSTIFFQ 80
Query: 61 FDYVGGAFYKNMVKVAKCVTYNKVVGIFGFT------GEDHIGKVSFPPVQAVPSFPSSF 114
D Y+ ++ VT+ ++ + GF +IG +++P +QA
Sbjct: 81 SDV--PEHYELAWLLSCVVTFGELERMTGFKDKSAQGESVNIGLLTYPVLQAADILLYKA 138
Query: 115 PHLFSGKDHLRCLIPCAIDQDPYFRMTRDVAPRIGYH------KPALIES--SFFPALQG 166
CL+P IDQDP+ +TRD+A R KPA + S +F P LQG
Sbjct: 139 -----------CLVPVGIDQDPHLELTRDIARRFNKLYGEIFPKPAALLSKGAFLPGLQG 187
Query: 167 ETGKMSASDPNSAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSF 226
+ KMS SDPN+AI++TDS K IK KI K A GG+ HR+ G V V+ S
Sbjct: 188 PSKKMSKSDPNNAIFLTDSPKEIKKKIMKAATDGGR---TEHRRDGGGPGVSNLVEIYSA 244
Query: 227 FLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVLTEL 262
F DD E EY +GG+ GE K+ LA+ + E
Sbjct: 245 FFNDDDEELEEIDEYRSGGLGYGECKKLLAEAIQEF 280
>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 = 260 bits (667), Expect = 4e-86
Identities = 103/295 (34%), Positives = 151/295 (51%), Gaps = 28/295 (9%)
Query: 1 MFTKYLQDAFKVPLVIQLTDDEKCMWKNLSVEESQRLAREN-AKDIIACGFDVTKTFIFS 59
+ TK+LQ F V L I + D K ++ R ARE A D +A G D KTFIF
Sbjct: 24 IQTKWLQ-QFGVELFICIADLHAITVKQTD-PDALRKAREELAADYLAVGLDPEKTFIFL 81
Query: 60 DFDYVGGAFYKNMVKVAKCVTYNKVVGIFGFTGEDH-----IGKVSFPPVQAVPSFPSSF 114
DY Y+ ++ VT+ ++ + F + IG +S+P +QA
Sbjct: 82 QSDY--PEHYELAWLLSCQVTFGELKRMTQFKDKSQAENVPIGLLSYPVLQAADILLYQA 139
Query: 115 PHLFSGKDHLRCLIPCAIDQDPYFRMTRDVAPRIG------YHKPALIESSFFPALQGET 168
L+P IDQD + +TRD+A R + KP + S FFP L G +
Sbjct: 140 D-----------LVPVGIDQDQHLELTRDLAERFNKKFKNFFPKPESLISKFFPRLMGLS 188
Query: 169 G-KMSASDPNSAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFF 227
G KMS SDPNSAI++TD+ K IK KI K A GG+ ++ HR+ + + +YLSFF
Sbjct: 189 GKKMSKSDPNSAIFLTDTPKQIKKKIRKAATDGGRVTLFEHREKPGVPNLLVIYQYLSFF 248
Query: 228 LEDDAELEHIKKEYGAGGMLTGEVKQRLAKVLTELVERHQVARAAVTDEMVDAFM 282
L DD +L+ I + Y +G + GE K+ L +VL E ++ Q RA + +E++D +
Sbjct: 249 LIDDDKLKEIYEAYKSGKLGYGECKKALIEVLQEFLKEIQERRAEIAEEILDKIL 303
>gnl|CDD|237037 PRK12285, PRK12285, tryptophanyl-tRNA synthetase; Reviewed.
Length = 368
Score = 249 bits (638), Expect = 3e-81
Identities = 103/286 (36%), Positives = 157/286 (54%), Gaps = 19/286 (6%)
Query: 2 FTKYLQDAFKVPLVIQLTDDEKCMWKNLSVEESQRLARENAKDIIACGFDVTKTFIFSDF 61
K+ Q+ F + I + DDE + LS EE++ A E D+IA GFD KT I+
Sbjct: 89 ELKWHQE-FGANVYIPIADDEAYAARGLSWEETREWAYEYILDLIALGFDPDKTEIYFQS 147
Query: 62 DYVGGAFYKNM-VKVAKCVTYNKVVGIFGFTGEDHIGKVSFPPVQAVPSFPSSFPHLFSG 120
+ ++ ++AK V ++++ I+GFTGE +IG + +P QA P L G
Sbjct: 148 EN---IKVYDLAFELAKKVNFSELKAIYGFTGETNIGHIFYPATQAADIL---HPQLEEG 201
Query: 121 KDHLRCLIPCAIDQDPYFRMTRDVAPRI----GYHKPALIESSFFPALQGETGKMSASDP 176
L+P IDQDP+ R+TRD+A R+ G+ KP+ F P L G GKMS+S P
Sbjct: 202 P--KPTLVPVGIDQDPHIRLTRDIAERLHGGYGFIKPSSTYHKFMPGLTG--GKMSSSKP 257
Query: 177 NSAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFL-EDDAELE 235
SAIY+TD + +K KI K A +GG+ ++E RKLG + + + L + L EDD EL+
Sbjct: 258 ESAIYLTDDPETVKKKIMK-ALTGGRATLEEQRKLGGEPDECVVYELLLYHLEEDDKELK 316
Query: 236 HIKKEYGAGGMLTGEVKQRLAKVLTELVERHQVARAAVTDEMVDAF 281
I +E +G +L GE K+ A+ + E ++ HQ R E+++ +
Sbjct: 317 EIYEECRSGELLCGECKKEAAEKIAEFLKEHQEKREEA-REILEKY 361
>gnl|CDD|223258 COG0180, TrpS, Tryptophanyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 314
Score = 203 bits (520), Expect = 3e-64
Identities = 78/300 (26%), Positives = 126/300 (42%), Gaps = 35/300 (11%)
Query: 1 MFTKYLQDAFKVPLVIQLTDDEKCMWKNLSVEES-QRLARENAKDIIACGFDVTKTFIFS 59
+ L + D + EE ++ RE A D +A G D K+ IF
Sbjct: 27 IRNWVLLQEEYYECFFFIADLHAITVRQDPTEEDLRQATREVAADYLAVGLDPEKSTIFL 86
Query: 60 DFDYVGGAFYKNMVKVAKCVTYNKVVGIFGFTGED-------HIGKVSFPPVQAVPSFPS 112
+ + ++ + ++ + F + IG +++P +QA
Sbjct: 87 QSEV--PEHAELAWLLSCVTNFGELERMTQFKDKSAKKGESIPIGLLTYPVLQAADIL-- 142
Query: 113 SFPHLFSGKDHLRCLIPCAIDQDPYFRMTRDVAPRIGYH------KPALI--ESSFFPAL 164
L+ L+P DQD + +TRD+A R + P + + + P L
Sbjct: 143 ----LYQA-----TLVPVGEDQDQHLELTRDIARRFNHLYGEVFPLPEALISKVARLPGL 193
Query: 165 QGETGKMSASDPNSAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYL 224
G GKMS SDPNSAI++ D K I+ KI K A G ++ +RK G EV +
Sbjct: 194 DGP-GKMSKSDPNSAIFLLDDPKTIRKKIKKAATDG--PTLIEYRK-GGKPEVCNLFEIY 249
Query: 225 SFFLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVLTELVERHQVARAAVTDEMVDAFMAV 284
S F EDD+ LE I+ EY G + GE K+ LA+ + E ++ Q R + ++ +
Sbjct: 250 SAFFEDDSILE-IEAEYRGGELGCGECKKELAEAIQEFLKPIQERREELREDP-AYLDDI 307
>gnl|CDD|236286 PRK08560, PRK08560, tyrosyl-tRNA synthetase; Validated.
Length = 329
Score = 85.3 bits (212), Expect = 4e-19
Identities = 55/180 (30%), Positives = 83/180 (46%), Gaps = 29/180 (16%)
Query: 30 SVEESQRLARENAKDIIACGFDVTKT-FIF-SDF----DYVGGAFYKNMVKVAKCVTYNK 83
+EE +++A N K A G D KT F+ S+F +Y ++K+AK T +
Sbjct: 80 DLEEIRKVAEYNKKVFEALGLDPDKTEFVLGSEFQLDKEYWL-----LVLKLAKNTTLAR 134
Query: 84 V---VGIFGFTGEDH-IGKVSFPPVQAVPSFPSSFPHLFSGKDHLRCLIPCA-IDQDPYF 138
+ I G E+ + K+ +P +Q F +L I +DQ
Sbjct: 135 ARRSMTIMGRRMEEPDVSKLVYPLMQVADIF------------YLDVDIAVGGMDQRKIH 182
Query: 139 RMTRDVAPRIGYHKPALIESSFFPALQGETGKMSASDPNSAIYVTDSAKAIKNKINKYAF 198
+ 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 = 74.2 bits (183), Expect = 2e-15
Identities = 58/253 (22%), Positives = 96/253 (37%), Gaps = 35/253 (13%)
Query: 30 SVEESQRLAR---ENAKDIIACGFDVTKTFIFSDFDYVGGAFYKNMVKV-AKCVTYNKVV 85
S E ENAK +ACG D K+ I ++ D++ + + + + +
Sbjct: 56 SEERKLLSREEVLENAKAQLACGLDPEKSEIVNNSDWLE---HLELAWLLRDLGNHFSLN 112
Query: 86 GIFGFTG----EDHIGKVSF-----PPVQAVPSFPSSFPHLFSGKDHLRCLIPCAIDQDP 136
+ F +S P +QA + L D L P DQ
Sbjct: 113 RMLQFKDVKKRLKQNPGISLGEFTYPLLQA-----ADILLLK--AD----LQPGGSDQWG 161
Query: 137 YFRMTRDVAPRIGYHKPALIESSFFPALQGETG--KMSASDPNSAIYVTDSAKAIKNKIN 194
+ + RD+A R P L G G KMS S NSAI++ D +++ KI
Sbjct: 162 HIELGRDLARRFNKKVFKKPVGLTNPLLTGLDGGKKMSKSAGNSAIFLDDEKESVYKKI- 220
Query: 195 KYAFSGGQESVELHRKLGANLEVDIPV-KYLSFFLEDDA--ELEHIKKEYGAGGMLTGEV 251
+ A++ E+ + L E+ + L FL E E + G + G++
Sbjct: 221 QKAYTDPDR--EVRKDLKLFTELSNEEIEILEAFLGKGPKREAEELLAREVTGLVHGGDL 278
Query: 252 KQRLAKVLTELVE 264
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: 127 LIPCAIDQDPYFRMTRDVAPRIGYH------KP-ALI--ESSFFPALQGETGKMSASDPN 177
L+P DQ + +TRD+A R P LI + L G T KMS SDPN
Sbjct: 141 LVPVGEDQKQHLELTRDIARRFNNLYGEVFPVPEPLIPKVGARVMGLDGPTKKMSKSDPN 200
Query: 178 --SAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLEDDAELE 235
+ I + D K I KI K A + + E+ L EV + S + +E
Sbjct: 201 DNNTINLLDDPKTIAKKIKK-AVTDSERLREIRYDLPNKPEVSNLLTIYSALSGE--SIE 257
Query: 236 HIKKEYGAGGMLTGEVKQRLAKVLTELVE 264
++ 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: 127 LIPCAIDQDPYFRMTRDVAPRIG--YHKPALIE-------SSFFPALQGETGKMSASDPN 177
L+P DQ P TR++ R Y L+E + P L G+ KMS S N
Sbjct: 145 LVPVGDDQLPMIEQTREIVRRFNSLYGTDVLVEPEALLPEAGRLPGLDGK-AKMSKSLGN 203
Query: 178 SAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLEDDAELEHI 237
AIY++D A IK K+ ++ + + + +E ++ YL F D AE+ +
Sbjct: 204 -AIYLSDDADTIKKKVMS-MYT---DPNHIRVEDPGKVEGNVVFTYLDAFDPDKAEVAEL 258
Query: 238 KKEYGAGGMLTGEVKQRLAKVLTELVE 264
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: 142 RDVAPRIGYHKPALIESSFFPALQGETGKMSASDPNSA-IYVTDSAKAIKNKINKYAFSG 200
RD+ ++GY K + + L G GKMS S+ N+ V DS + KI AF
Sbjct: 169 RDLIRKLGYKKVVGLTTPLLTGLDG--GKMSKSEGNAIWDPVLDSPYDVYQKIRN-AFDP 225
Query: 201 GQESVELHRKLGANLEVDIPVKYLSFFLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVLT 260
+K +F D E+E +++E+ G L + K+ LA+ LT
Sbjct: 226 DVLEF---------------LKLFTFL--DYEEIEELEEEHAEGP-LPRDAKKALAEELT 267
Query: 261 EL 262
+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: 151 HKPALIESSFFPALQGETGKMSASDPNSAIYVTDSAKAIKNKINK 195
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 = 36.8 bits (86), Expect = 0.009
Identities = 30/150 (20%), Positives = 47/150 (31%), Gaps = 36/150 (24%)
Query: 140 MTRDVAPRIGYHKPALIESSFFPALQGE-------TGKMSASDPNSAIYVTDSAKAIKNK 192
RD+ R+G K + + L G+ S+ S I++
Sbjct: 196 AGRDLIRRLGQKKVVGLTTPLLTGLDGKKMGKSEGGAVWLDSEKTSPYDFYQYWMNIEDA 255
Query: 193 INKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLE-DDAELEHIKKEYGAGGMLTGEV 251
K ++L E+E I+K G E
Sbjct: 256 DVK--------------------------RFLKLLTFLSLEEIEEIEKYVLKGPEPR-EA 288
Query: 252 KQRLAKVLTELVERHQVARAAVTDEMVDAF 281
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: 132 IDQDPYFRMTRDVAPRIGYH-KPALIESSFFPALQGETGKMSASDPNSAIYVTDSAKAIK 190
+DQ + R+ IG KP ++ L+ KMS SDP+SAI++ D+ + +
Sbjct: 183 LDQRKVNMLAREYCDLIGRKLKPVILSHHMLAGLKQGQAKMSKSDPDSAIFMEDTEEDVA 242
Query: 191 NKI 193
KI
Sbjct: 243 RKI 245
>gnl|CDD|215478 PLN02886, PLN02886, aminoacyl-tRNA ligase.
Length = 389
Score = 35.9 bits (83), Expect = 0.019
Identities = 25/92 (27%), Positives = 36/92 (39%), Gaps = 23/92 (25%)
Query: 127 LIPCAIDQDPYFRMTRDVAPRI-------------GYHKPAL-IESSFFP-------ALQ 165
L+P DQ + +TRD+A R+ G + + P +L
Sbjct: 187 LVPVGEDQKQHLELTRDIAERVNNLYGGRKWKKLGGRGGSVFKVPEALIPPAGARVMSLT 246
Query: 166 GETGKMSASDPN--SAIYVTDSAKAIKNKINK 195
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 = 0.74
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 2/32 (6%)
Query: 252 KQRLAKVLTELVERHQVARAAV--TDEMVDAF 281
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 = 0.85
Identities = 12/51 (23%), Positives = 25/51 (49%), Gaps = 5/51 (9%)
Query: 163 ALQGETGKMSASDPNSAIYVTDSAKAIKNKINKYAFSGGQESVE-LHRKLG 212
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: 105 QAVPSFPSSFPHL----FSGKDHLRCLIPCAIDQDPYFRMTRDVAPRIGYHKPALIESSF 160
QAV S P F L F D++ L +D + PR L+ S
Sbjct: 115 QAVVSKPREFASLIRNKFGSADNIAHL------KDSLEDGGPEENPRNLSGSATLVLSPK 168
Query: 161 FPALQGETGKMSASDPNSAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIP 220
+ + S+ +SA + SA A N + + Q+ KL L +I
Sbjct: 169 YGSDDS-------SECSSA--TSSSAGANSNSGSGPGSAVAQQQSLNLDKLLEELR-EIK 218
Query: 221 VKYLSFFLEDDAEL--EHIKKEYGAGGMLTGEVK---QRLAKVLTELVERHQ 267
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 = 2.2
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 13 PLVIQLTDDEKCMWKNLSVEESQRLAR 39
L++ L + EK WK+LS+EE + L R
Sbjct: 31 ELIMALREKEKGDWKSLSLEEKKALYR 57
>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: 242 GAGGMLTGEVKQRLAKVLTEL--VERHQVARAAVTDEMVDAFMAVRPLPNMFD 292
GAG M VK ++K T++ V R + AA+ +E D + +PL M
Sbjct: 273 GAGKMGKLLVKHLVSKGCTKMVVVNRSEERVAALREEFPDVEIIYKPLDEMLA 325
>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 = 3.4
Identities = 18/70 (25%), Positives = 28/70 (40%), Gaps = 17/70 (24%)
Query: 220 PVKYLSFFLE--DDAELEHIKKEYGAGG--------MLTGEVKQRLAKVLTELVERHQVA 269
P K +SF L+ D + +K + G ML R+ K+L + ER +
Sbjct: 211 PPK-ISFTLQPWDGSLPPLVKPDPINEGNSRLNAPRML------RVKKILAYVAERFEPD 263
Query: 270 RAAVTDEMVD 279
+ T EM
Sbjct: 264 PESRTSEMKK 273
>gnl|CDD|140293 PTZ00267, PTZ00267, NIMA-related protein kinase; Provisional.
Length = 478
Score = 28.8 bits (64), Expect = 4.1
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 221 VKYLSFFLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVL 259
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 = 5.5
Identities = 18/67 (26%), Positives = 25/67 (37%), Gaps = 1/67 (1%)
Query: 221 VKYLSF-FLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVLTELVERHQVARAAVTDEMVD 279
+K L F L + A + E GE+K+ LAK EL AV +E V
Sbjct: 1 IKVLYFARLREQAGTDEETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVT 60
Query: 280 AFMAVRP 286
+
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: 247 LTGEVKQRLAKVLTELVERHQV 268
++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 = 8.4
Identities = 8/33 (24%), Positives = 11/33 (33%)
Query: 91 TGEDHIGKVSFPPVQAVPSFPSSFPHLFSGKDH 123
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 0.406
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: 15,192,131
Number of extensions: 1467130
Number of successful extensions: 1557
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1528
Number of HSP's successfully gapped: 35
Length of query: 292
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 196
Effective length of database: 6,679,618
Effective search space: 1309205128
Effective search space used: 1309205128
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)