RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 027582
(221 letters)
>gnl|CDD|178104 PLN02486, PLN02486, aminoacyl-tRNA ligase.
Length = 383
Score = 443 bits (1142), Expect = e-159
Identities = 185/217 (85%), Positives = 202/217 (93%)
Query: 1 MVKVAKCVTYNKVVGIFGFTGEDHIGKVSFPPVQAVPSFPSSFPHLFSGKDHLRCLIPCA 60
MVK+AKCVT N+V GIFGF+GED+IGK+SFP VQA PSFPSSFPHLF GKD LRCLIPCA
Sbjct: 167 MVKIAKCVTLNQVRGIFGFSGEDNIGKISFPAVQAAPSFPSSFPHLFGGKDKLRCLIPCA 226
Query: 61 IDQDPYFRMTRDVAPRIGYHKPALIESSFFPALQGETGKMSASDPNSAIYVTDSAKAIKN 120
IDQDPYFRMTRDVAPR+GY+KPALIES FFPALQGE+GKMSASDPNSAIYVTD+ K IKN
Sbjct: 227 IDQDPYFRMTRDVAPRLGYYKPALIESRFFPALQGESGKMSASDPNSAIYVTDTPKEIKN 286
Query: 121 KINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLEDDAELEHIKKEYGAGGMLTGEV 180
KINKYAFSGGQ++VE HR+LGANLEVDIP KYL+FFLEDDAELE IKKEYG+G MLTGEV
Sbjct: 287 KINKYAFSGGQDTVEEHRELGANLEVDIPWKYLNFFLEDDAELERIKKEYGSGRMLTGEV 346
Query: 181 KQRLAKVLTELVERHQVARAAVTDEMVDAFMAVRPLP 217
K+RL +VLTE+VERHQ ARAAVTDEMVDAFMAVRPLP
Sbjct: 347 KKRLIEVLTEIVERHQRARAAVTDEMVDAFMAVRPLP 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 = 206 bits (527), Expect = 3e-66
Identities = 76/222 (34%), Positives = 117/222 (52%), Gaps = 23/222 (10%)
Query: 2 VKVAKCVTYNKVVGIFGFTGEDH-----IGKVSFPPVQAVPSFPSSFPHLFSGKDHLRCL 56
++ VT+ ++ + F + IG +S+P +QA L
Sbjct: 93 WLLSCQVTFGELKRMTQFKDKSQAENVPIGLLSYPVLQAADILLYQAD-----------L 141
Query: 57 IPCAIDQDPYFRMTRDVAPRIG------YHKPALIESSFFPALQGETG-KMSASDPNSAI 109
+P IDQD + +TRD+A R + KP + S FFP L G +G KMS SDPNSAI
Sbjct: 142 VPVGIDQDQHLELTRDLAERFNKKFKNFFPKPESLISKFFPRLMGLSGKKMSKSDPNSAI 201
Query: 110 YVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLEDDAELEHIKKE 169
++TD+ K IK KI K A GG+ ++ HR+ + + +YLSFFL DD +L+ I +
Sbjct: 202 FLTDTPKQIKKKIRKAATDGGRVTLFEHREKPGVPNLLVIYQYLSFFLIDDDKLKEIYEA 261
Query: 170 YGAGGMLTGEVKQRLAKVLTELVERHQVARAAVTDEMVDAFM 211
Y +G + GE K+ L +VL E ++ Q RA + +E++D +
Sbjct: 262 YKSGKLGYGECKKALIEVLQEFLKEIQERRAEIAEEILDKIL 303
>gnl|CDD|237037 PRK12285, PRK12285, tryptophanyl-tRNA synthetase; Reviewed.
Length = 368
Score = 200 bits (512), Expect = 2e-63
Identities = 81/214 (37%), Positives = 123/214 (57%), Gaps = 14/214 (6%)
Query: 2 VKVAKCVTYNKVVGIFGFTGEDHIGKVSFPPVQAVPSFPSSFPHLFSGKDHLRCLIPCAI 61
++AK V ++++ I+GFTGE +IG + +P QA P L G L+P I
Sbjct: 157 FELAKKVNFSELKAIYGFTGETNIGHIFYPATQAADIL---HPQLEEGP--KPTLVPVGI 211
Query: 62 DQDPYFRMTRDVAPRI----GYHKPALIESSFFPALQGETGKMSASDPNSAIYVTDSAKA 117
DQDP+ R+TRD+A R+ G+ KP+ F P L G GKMS+S P SAIY+TD +
Sbjct: 212 DQDPHIRLTRDIAERLHGGYGFIKPSSTYHKFMPGLTG--GKMSSSKPESAIYLTDDPET 269
Query: 118 IKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFL-EDDAELEHIKKEYGAGGML 176
+K KI K A +GG+ ++E RKLG + + + L + L EDD EL+ I +E +G +L
Sbjct: 270 VKKKIMK-ALTGGRATLEEQRKLGGEPDECVVYELLLYHLEEDDKELKEIYEECRSGELL 328
Query: 177 TGEVKQRLAKVLTELVERHQVARAAVTDEMVDAF 210
GE K+ A+ + E ++ HQ R E+++ +
Sbjct: 329 CGECKKEAAEKIAEFLKEHQEKREEA-REILEKY 361
>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 = 190 bits (485), Expect = 2e-60
Identities = 72/205 (35%), Positives = 101/205 (49%), Gaps = 28/205 (13%)
Query: 1 MVKVAKCVTYNKVVGIFGFT------GEDHIGKVSFPPVQAVPSFPSSFPHLFSGKDHLR 54
++ VT+ ++ + GF +IG +++P +QA
Sbjct: 90 AWLLSCVVTFGELERMTGFKDKSAQGESVNIGLLTYPVLQAADILLYKA----------- 138
Query: 55 CLIPCAIDQDPYFRMTRDVAPRIGYH------KPALIES--SFFPALQGETGKMSASDPN 106
CL+P IDQDP+ +TRD+A R KPA + S +F P LQG + KMS SDPN
Sbjct: 139 CLVPVGIDQDPHLELTRDIARRFNKLYGEIFPKPAALLSKGAFLPGLQGPSKKMSKSDPN 198
Query: 107 SAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLEDDAELEHI 166
+AI++TDS K IK KI K A GG+ HR+ G V V+ S F DD E
Sbjct: 199 NAIFLTDSPKEIKKKIMKAATDGGR---TEHRRDGGGPGVSNLVEIYSAFFNDDDEELEE 255
Query: 167 KKEYGAGGMLTGEVKQRLAKVLTEL 191
EY +GG+ GE K+ LA+ + E
Sbjct: 256 IDEYRSGGLGYGECKKLLAEAIQEF 280
>gnl|CDD|223258 COG0180, TrpS, Tryptophanyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 314
Score = 155 bits (394), Expect = 2e-46
Identities = 64/227 (28%), Positives = 103/227 (45%), Gaps = 32/227 (14%)
Query: 2 VKVAKCVTYNKVVGIFGFTGED-------HIGKVSFPPVQAVPSFPSSFPHLFSGKDHLR 54
++ + ++ + F + IG +++P +QA L+
Sbjct: 98 WLLSCVTNFGELERMTQFKDKSAKKGESIPIGLLTYPVLQAADIL------LYQA----- 146
Query: 55 CLIPCAIDQDPYFRMTRDVAPRIGYH------KPALI--ESSFFPALQGETGKMSASDPN 106
L+P DQD + +TRD+A R + P + + + P L G GKMS SDPN
Sbjct: 147 TLVPVGEDQDQHLELTRDIARRFNHLYGEVFPLPEALISKVARLPGLDGP-GKMSKSDPN 205
Query: 107 SAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLEDDAELEHI 166
SAI++ D K I+ KI K A G ++ +RK G EV + S F EDD+ LE I
Sbjct: 206 SAIFLLDDPKTIRKKIKKAATDG--PTLIEYRK-GGKPEVCNLFEIYSAFFEDDSILE-I 261
Query: 167 KKEYGAGGMLTGEVKQRLAKVLTELVERHQVARAAVTDEMVDAFMAV 213
+ EY G + GE K+ LA+ + E ++ Q R + ++ +
Sbjct: 262 EAEYRGGELGCGECKKELAEAIQEFLKPIQERREELREDP-AYLDDI 307
>gnl|CDD|236286 PRK08560, PRK08560, tyrosyl-tRNA synthetase; Validated.
Length = 329
Score = 72.6 bits (179), Expect = 3e-15
Identities = 28/67 (41%), Positives = 38/67 (56%), Gaps = 1/67 (1%)
Query: 61 IDQDPYFRMTRDVAPRIGYHKPALIESSFFPALQGETGKMSASDPNSAIYVTDSAKAIKN 120
+DQ + R+V P++GY KP I + L G KMS S P SAI+V DS + I+
Sbjct: 176 MDQRKIHMLAREVLPKLGYKKPVCIHTPLLTGLDGGGIKMSKSKPGSAIFVHDSPEEIRR 235
Query: 121 KINKYAF 127
KI K A+
Sbjct: 236 KIKK-AY 241
>gnl|CDD|216003 pfam00579, tRNA-synt_1b, tRNA synthetases class I (W and Y).
Length = 291
Score = 71.2 bits (175), Expect = 7e-15
Identities = 38/143 (26%), Positives = 61/143 (42%), Gaps = 8/143 (5%)
Query: 56 LIPCAIDQDPYFRMTRDVAPRIGYHKPALIESSFFPALQGETG--KMSASDPNSAIYVTD 113
L P DQ + + RD+A R P L G G KMS S NSAI++ D
Sbjct: 152 LQPGGSDQWGHIELGRDLARRFNKKVFKKPVGLTNPLLTGLDGGKKMSKSAGNSAIFLDD 211
Query: 114 SAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPV-KYLSFFLEDDA--ELEHIKKEY 170
+++ KI + A++ E+ + L E+ + L FL E E +
Sbjct: 212 EKESVYKKI-QKAYTDPDR--EVRKDLKLFTELSNEEIEILEAFLGKGPKREAEELLARE 268
Query: 171 GAGGMLTGEVKQRLAKVLTELVE 193
G + G++K+ A+ + L+E
Sbjct: 269 VTGLVHGGDLKKAAAEAVNALLE 291
>gnl|CDD|234866 PRK00927, PRK00927, tryptophanyl-tRNA synthetase; Reviewed.
Length = 333
Score = 65.5 bits (161), Expect = 9e-13
Identities = 46/149 (30%), Positives = 66/149 (44%), Gaps = 14/149 (9%)
Query: 56 LIPCAIDQDPYFRMTRDVAPRIGYH------KP-ALI--ESSFFPALQGETGKMSASDPN 106
L+P DQ + +TRD+A R P LI + L G T KMS SDPN
Sbjct: 141 LVPVGEDQKQHLELTRDIARRFNNLYGEVFPVPEPLIPKVGARVMGLDGPTKKMSKSDPN 200
Query: 107 --SAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLEDDAELE 164
+ I + D K I KI K A + + E+ L EV + S + +E
Sbjct: 201 DNNTINLLDDPKTIAKKIKK-AVTDSERLREIRYDLPNKPEVSNLLTIYSALSGE--SIE 257
Query: 165 HIKKEYGAGGMLTGEVKQRLAKVLTELVE 193
++ 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 = 6e-11
Identities = 44/147 (29%), Positives = 68/147 (46%), Gaps = 15/147 (10%)
Query: 56 LIPCAIDQDPYFRMTRDVAPRIG--YHKPALIE-------SSFFPALQGETGKMSASDPN 106
L+P DQ P TR++ R Y L+E + P L G+ KMS S N
Sbjct: 145 LVPVGDDQLPMIEQTREIVRRFNSLYGTDVLVEPEALLPEAGRLPGLDGK-AKMSKSLGN 203
Query: 107 SAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLEDDAELEHI 166
AIY++D A IK K+ ++ + + + +E ++ YL F D AE+ +
Sbjct: 204 -AIYLSDDADTIKKKVMS-MYT---DPNHIRVEDPGKVEGNVVFTYLDAFDPDKAEVAEL 258
Query: 167 KKEYGAGGMLTGEVKQRLAKVLTELVE 193
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 = 4e-07
Identities = 34/122 (27%), Positives = 53/122 (43%), Gaps = 22/122 (18%)
Query: 71 RDVAPRIGYHKPALIESSFFPALQGETGKMSASDPNSA-IYVTDSAKAIKNKINKYAFSG 129
RD+ ++GY K + + L G GKMS S+ N+ V DS + KI AF
Sbjct: 169 RDLIRKLGYKKVVGLTTPLLTGLDG--GKMSKSEGNAIWDPVLDSPYDVYQKIRN-AFDP 225
Query: 130 GQESVELHRKLGANLEVDIPVKYLSFFLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVLT 189
+K +F D E+E +++E+ G L + K+ LA+ LT
Sbjct: 226 DVLEF---------------LKLFTFL--DYEEIEELEEEHAEGP-LPRDAKKALAEELT 267
Query: 190 EL 191
+L
Sbjct: 268 KL 269
>gnl|CDD|240282 PTZ00126, PTZ00126, tyrosyl-tRNA synthetase; Provisional.
Length = 383
Score = 47.4 bits (113), Expect = 2e-06
Identities = 19/45 (42%), Positives = 25/45 (55%)
Query: 80 HKPALIESSFFPALQGETGKMSASDPNSAIYVTDSAKAIKNKINK 124
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 = 0.004
Identities = 30/150 (20%), Positives = 47/150 (31%), Gaps = 36/150 (24%)
Query: 69 MTRDVAPRIGYHKPALIESSFFPALQGE-------TGKMSASDPNSAIYVTDSAKAIKNK 121
RD+ R+G K + + L G+ S+ S I++
Sbjct: 196 AGRDLIRRLGQKKVVGLTTPLLTGLDGKKMGKSEGGAVWLDSEKTSPYDFYQYWMNIEDA 255
Query: 122 INKYAFSGGQESVELHRKLGANLEVDIPVKYLSFFLE-DDAELEHIKKEYGAGGMLTGEV 180
K ++L E+E I+K G E
Sbjct: 256 DVK--------------------------RFLKLLTFLSLEEIEEIEKYVLKGPEPR-EA 288
Query: 181 KQRLAKVLTELVERHQVARAAVTDEMVDAF 210
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 = 36.4 bits (84), Expect = 0.008
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 1/63 (1%)
Query: 61 IDQDPYFRMTRDVAPRIGYH-KPALIESSFFPALQGETGKMSASDPNSAIYVTDSAKAIK 119
+DQ + R+ IG KP ++ L+ KMS SDP+SAI++ D+ + +
Sbjct: 183 LDQRKVNMLAREYCDLIGRKLKPVILSHHMLAGLKQGQAKMSKSDPDSAIFMEDTEEDVA 242
Query: 120 NKI 122
KI
Sbjct: 243 RKI 245
>gnl|CDD|215478 PLN02886, PLN02886, aminoacyl-tRNA ligase.
Length = 389
Score = 35.6 bits (82), Expect = 0.016
Identities = 25/92 (27%), Positives = 36/92 (39%), Gaps = 23/92 (25%)
Query: 56 LIPCAIDQDPYFRMTRDVAPRI-------------GYHKPAL-IESSFFP-------ALQ 94
L+P DQ + +TRD+A R+ G + + P +L
Sbjct: 187 LVPVGEDQKQHLELTRDIAERVNNLYGGRKWKKLGGRGGSVFKVPEALIPPAGARVMSLT 246
Query: 95 GETGKMSASDPN--SAIYVTDSAKAIKNKINK 124
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 = 0.42
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 2/32 (6%)
Query: 181 KQRLAKVLTELVERHQVARAAV--TDEMVDAF 210
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 = 0.57
Identities = 12/51 (23%), Positives = 25/51 (49%), Gaps = 5/51 (9%)
Query: 92 ALQGETGKMSASDPNSAIYVTDSAKAIKNKINKYAFSGGQESVE-LHRKLG 141
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 = 30.2 bits (68), Expect = 0.97
Identities = 40/172 (23%), Positives = 63/172 (36%), Gaps = 27/172 (15%)
Query: 34 QAVPSFPSSFPHL----FSGKDHLRCLIPCAIDQDPYFRMTRDVAPRIGYHKPALIESSF 89
QAV S P F L F D++ L +D + PR L+ S
Sbjct: 115 QAVVSKPREFASLIRNKFGSADNIAHL------KDSLEDGGPEENPRNLSGSATLVLSPK 168
Query: 90 FPALQGETGKMSASDPNSAIYVTDSAKAIKNKINKYAFSGGQESVELHRKLGANLEVDIP 149
+ + S+ +SA + SA A N + + Q+ KL L +I
Sbjct: 169 YGSDDS-------SECSSA--TSSSAGANSNSGSGPGSAVAQQQSLNLDKLLEELR-EIK 218
Query: 150 VKYLSFFLEDDAEL--EHIKKEYGAGGMLTGEVK---QRLAKVLTELVERHQ 196
LE+ E E ++++Y E + +RL + L +L E HQ
Sbjct: 219 EGQSR--LEESYERLKEQLQRDYQYITQSLQEERYRYERLEEQLNDLTELHQ 268
>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 = 2.7
Identities = 18/70 (25%), Positives = 28/70 (40%), Gaps = 17/70 (24%)
Query: 149 PVKYLSFFLE--DDAELEHIKKEYGAGG--------MLTGEVKQRLAKVLTELVERHQVA 198
P K +SF L+ D + +K + G ML R+ K+L + ER +
Sbjct: 211 PPK-ISFTLQPWDGSLPPLVKPDPINEGNSRLNAPRML------RVKKILAYVAERFEPD 263
Query: 199 RAAVTDEMVD 208
+ T EM
Sbjct: 264 PESRTSEMKK 273
>gnl|CDD|215101 PLN00203, PLN00203, glutamyl-tRNA reductase.
Length = 519
Score = 28.6 bits (64), Expect = 2.7
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 171 GAGGMLTGEVKQRLAKVLTEL--VERHQVARAAVTDEMVDAFMAVRPLPNMFD 221
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 = 28.4 bits (63), Expect = 2.9
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 150 VKYLSFFLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVL 188
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 = 26.1 bits (58), Expect = 5.1
Identities = 18/67 (26%), Positives = 25/67 (37%), Gaps = 1/67 (1%)
Query: 150 VKYLSF-FLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVLTELVERHQVARAAVTDEMVD 208
+K L F L + A + E GE+K+ LAK EL AV +E V
Sbjct: 1 IKVLYFARLREQAGTDEETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVT 60
Query: 209 AFMAVRP 215
+
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 = 5.8
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 176 LTGEVKQRLAKVLTELVERHQV 197
++GEV Q + K L EL HQV
Sbjct: 205 ISGEVAQAVGKKLKELSRSHQV 226
>gnl|CDD|215420 PLN02785, PLN02785, Protein HOTHEAD.
Length = 587
Score = 27.5 bits (61), Expect = 6.3
Identities = 8/33 (24%), Positives = 11/33 (33%)
Query: 20 TGEDHIGKVSFPPVQAVPSFPSSFPHLFSGKDH 52
G+ H +P + SF SS S
Sbjct: 21 QGKSHFTPYRYPFIDKASSFSSSSSSSSSSGGD 53
>gnl|CDD|233840 TIGR02386, rpoC_TIGR, DNA-directed RNA polymerase, beta' subunit,
predominant form. Bacteria have a single DNA-directed
RNA polymerase, with required subunits that include
alpha, beta, and beta-prime. This model describes the
predominant architecture of the beta-prime subunit in
most bacteria. This model excludes from among the
bacterial mostly sequences from the cyanobacteria, where
RpoC is replaced by two tandem genes homologous to it
but also encoding an additional domain [Transcription,
DNA-dependent RNA polymerase].
Length = 1140
Score = 27.3 bits (61), Expect = 7.1
Identities = 18/67 (26%), Positives = 29/67 (43%), Gaps = 11/67 (16%)
Query: 147 DIPV---KYLSFFLEDDAELEHIKKEYGAGGMLTGEVKQRLAKVLTELVERHQVARAAVT 203
DI V KY E D E+ I+K Y G + E +++ + +E ++ VT
Sbjct: 612 DIVVPDEKY-EILKEADKEVAKIQKFYNKGLITDEERYRKVVSIWSETKDK-------VT 663
Query: 204 DEMVDAF 210
D M+
Sbjct: 664 DAMMKLL 670
>gnl|CDD|214955 smart00985, UBA_e1_C, Ubiquitin-activating enzyme e1 C-terminal
domain. This presumed domain found at the C terminus of
Ubiquitin-activating enzyme e1 proteins is functionally
uncharacterised.
Length = 128
Score = 26.1 bits (58), Expect = 9.5
Identities = 12/46 (26%), Positives = 22/46 (47%), Gaps = 14/46 (30%)
Query: 163 LEHIKKEYG--------------AGGMLTGEVKQRLAKVLTELVER 194
L++ +++YG + M + K+RL +TELVE+
Sbjct: 51 LDYFEEKYGLEVTMLSQGVSLLYSSFMPPKKHKERLDLPVTELVEQ 96
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
0.320 0.137 0.402
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: 11,485,502
Number of extensions: 1084495
Number of successful extensions: 1190
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1168
Number of HSP's successfully gapped: 39
Length of query: 221
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 128
Effective length of database: 6,812,680
Effective search space: 872023040
Effective search space used: 872023040
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 (21.8 bits)
S2: 57 (25.7 bits)