RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 013695
(438 letters)
>gnl|CDD|178534 PLN02948, PLN02948, phosphoribosylaminoimidazole carboxylase.
Length = 577
Score = 838 bits (2167), Expect = 0.0
Identities = 331/438 (75%), Positives = 377/438 (86%), Gaps = 1/438 (0%)
Query: 1 MEVNDLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSAITALGGFDRGLYVE 60
ME++DLESA +AG FGYPLM+KS+RLAYDGRGNAVAK+EE+LSSA+ ALGGF+RGLY E
Sbjct: 140 MEIDDLESAEKAGDLFGYPLMLKSRRLAYDGRGNAVAKTEEDLSSAVAALGGFERGLYAE 199
Query: 61 KWAPFVKELAVIVVRGRDKSILCYPVVETIHKENICHIVKAPAAVPWKISELATDVAHKA 120
KWAPFVKELAV+V R RD S CYPVVETIHK+NICH+V+APA VPWK+++LATDVA KA
Sbjct: 200 KWAPFVKELAVMVARSRDGSTRCYPVVETIHKDNICHVVEAPANVPWKVAKLATDVAEKA 259
Query: 121 VSSLEGAGIFAVELFWTNNGQILLNEVAPRPHNSGHHTIESCYTSQFEQHMRAVVGLPLG 180
V SLEGAG+F VELF +GQILLNEVAPRPHNSGH+TIE+CYTSQFEQH+RAV+GLPLG
Sbjct: 260 VGSLEGAGVFGVELFLLKDGQILLNEVAPRPHNSGHYTIEACYTSQFEQHLRAVLGLPLG 319
Query: 181 DPSMKTPAAIMYNLLGEAEGERGFYLAHQLIGKALSIPGATVHWYDKPEMRQQRKMGHIT 240
D SMK PAAIMYN+LGE EGE GF LAHQL+G+AL+IPGA+VHWY KPEMR+QRKMGHIT
Sbjct: 320 DTSMKVPAAIMYNILGEDEGEAGFRLAHQLMGRALNIPGASVHWYGKPEMRKQRKMGHIT 379
Query: 241 IVGSSMGLVESRLNSLLKEDSSDCQFKTVL-PRIGIIMGSDSDLPVMKDAAKILTMFSVP 299
+VG S VE+RL+ LL E+S+D P +GIIMGSDSDLP MKDAA+IL F VP
Sbjct: 380 VVGPSAAEVEARLDQLLAEESADPDALPKGTPLVGIIMGSDSDLPTMKDAAEILDSFGVP 439
Query: 300 HEVRIVSAHRTPDLMFSYASSAHERGIEIIIAGAGGAAHLPGMVAARTPLPVIGVPVRAS 359
+EV IVSAHRTP+ MFSYA SAH RG+++IIAGAGGAAHLPGMVA+ TPLPVIGVPV+ S
Sbjct: 440 YEVTIVSAHRTPERMFSYARSAHSRGLQVIIAGAGGAAHLPGMVASMTPLPVIGVPVKTS 499
Query: 360 ALDGLDSLLSIVQMPRGVPVATVAINNATNAGLLAVRMLGFGDADLRARMQQYMEDMRDD 419
LDGLDSLLSIVQMPRGVPVATVAI NATNAGLLAVRMLG D DL +M+ Y EDMRD
Sbjct: 500 HLDGLDSLLSIVQMPRGVPVATVAIGNATNAGLLAVRMLGASDPDLLDKMEAYQEDMRDM 559
Query: 420 VLTKAEKLQKDGWESYLN 437
VL KAEKL++ GWE YLN
Sbjct: 560 VLEKAEKLEELGWEEYLN 577
>gnl|CDD|235674 PRK06019, PRK06019, phosphoribosylaminoimidazole carboxylase ATPase
subunit; Reviewed.
Length = 372
Score = 289 bits (743), Expect = 8e-95
Identities = 103/254 (40%), Positives = 155/254 (61%), Gaps = 10/254 (3%)
Query: 3 VNDLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSAITALGGFDRGLYVEKW 62
V+ E A G P ++K++R YDG+G V +S E+L +A LG +E++
Sbjct: 121 VDSAEDLEAALADLGLPAVLKTRRGGYDGKGQWVIRSAEDLEAAWALLGSVP--CILEEF 178
Query: 63 APFVKELAVIVVRGRDKSILCYPVVETIHKENICHIVKAPAAVPWKISELATDVAHKAVS 122
PF +E++VIV RGRD ++ YP+VE +H+ I APA + ++ A ++A +
Sbjct: 179 VPFEREVSVIVARGRDGEVVFYPLVENVHRNGILRTSIAPARISAELQAQAEEIASRIAE 238
Query: 123 SLEGAGIFAVELFWTNNGQILLNEVAPRPHNSGHHTIESCYTSQFEQHMRAVVGLPLGDP 182
L+ G+ AVE F T +G++L+NE+APRPHNSGH TIE+C TSQFEQH+RA++GLPLG
Sbjct: 239 ELDYVGVLAVEFFVTGDGELLVNEIAPRPHNSGHWTIEACSTSQFEQHLRAILGLPLGTT 298
Query: 183 SMKTPAAIMYNLLGEAEGERGFYLAHQLIGKALSIPGATVHWYDKPEMRQQRKMGHITIV 242
+ +P A+M NLLG+ L++PGA +H Y K E R RKMGH+T++
Sbjct: 299 RLLSP-AVMVNLLGDDW-------LEPRWDALLALPGAHLHLYGKAEARPGRKMGHVTVL 350
Query: 243 GSSMGLVESRLNSL 256
G + + ++L +L
Sbjct: 351 GDDVEALLAKLEAL 364
>gnl|CDD|233295 TIGR01161, purK, phosphoribosylaminoimidazole carboxylase, PurK
protein. Phosphoribosylaminoimidazole carboxylase is a
fusion protein in plants and fungi, but consists of two
non-interacting proteins in bacteria, PurK and PurE.
This model represents PurK, N5-carboxyaminoimidazole
ribonucleotide synthetase, which hydrolyzes ATP and
converts AIR to N5-CAIR. PurE converts N5-CAIR to CAIR.
In the presence of high concentrations of bicarbonate,
PurE is reported able to convert AIR to CAIR directly
and without ATP [Purines, pyrimidines, nucleosides, and
nucleotides, Purine ribonucleotide biosynthesis].
Length = 352
Score = 284 bits (730), Expect = 3e-93
Identities = 104/242 (42%), Positives = 152/242 (62%), Gaps = 12/242 (4%)
Query: 4 NDLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSAITALGGFDRGLYVEKWA 63
+L++A ++ G+P+++K++ YDGRG ++E +L A LG DR VE++
Sbjct: 123 EELDAA---LQELGFPVVLKARTGGYDGRGQYRIRNEADLPQAAKELG--DRECIVEEFV 177
Query: 64 PFVKELAVIVVRGRDKSILCYPVVETIHKENICHIVKAPAAVPWKISELATDVAHKAVSS 123
PF +EL+VIV R D YPVVE IH++ I V APAAVP I A ++A + +
Sbjct: 178 PFERELSVIVARSADGETAFYPVVENIHQDGILRYVVAPAAVPDAIQARAEEIARRLMEE 237
Query: 124 LEGAGIFAVELFWTNNGQILLNEVAPRPHNSGHHTIESCYTSQFEQHMRAVVGLPLGDPS 183
L G+ AVE+F +G++L+NE+APR HNSGH+T++ C TSQFEQH+RA++GLPLG
Sbjct: 238 LGYVGVLAVEMFVLPDGRLLINELAPRVHNSGHYTLDGCSTSQFEQHLRAILGLPLGSTE 297
Query: 184 MKTPAAIMYNLLGEAEGERGFYLAHQLIGKALSIPGATVHWYDKPEMRQQRKMGHITIVG 243
+ P ++M NLLG L + L++PGA +HWY K E+R RK+GH+ +VG
Sbjct: 298 LLLP-SVMVNLLGTE------DDVIPLWEEILALPGAKLHWYGKAEVRPGRKVGHVNLVG 350
Query: 244 SS 245
S
Sbjct: 351 SD 352
>gnl|CDD|223119 COG0041, PurE, Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase
[Nucleotide transport and metabolism].
Length = 162
Score = 273 bits (700), Expect = 2e-91
Identities = 101/159 (63%), Positives = 125/159 (78%)
Query: 271 PRIGIIMGSDSDLPVMKDAAKILTMFSVPHEVRIVSAHRTPDLMFSYASSAHERGIEIII 330
P++GIIMGS SD MK AA+IL F VP+EVR+VSAHRTP+ MF YA A ERG+++II
Sbjct: 3 PKVGIIMGSKSDWDTMKKAAEILEEFGVPYEVRVVSAHRTPEKMFEYAEEAEERGVKVII 62
Query: 331 AGAGGAAHLPGMVAARTPLPVIGVPVRASALDGLDSLLSIVQMPRGVPVATVAINNATNA 390
AGAGGAAHLPGMVAA+TPLPVIGVPV++ AL GLDSLLSIVQMP GVPVATVAI NA NA
Sbjct: 63 AGAGGAAHLPGMVAAKTPLPVIGVPVQSKALSGLDSLLSIVQMPAGVPVATVAIGNAANA 122
Query: 391 GLLAVRMLGFGDADLRARMQQYMEDMRDDVLTKAEKLQK 429
LLA ++L D +L ++ ++ E ++VL E+L++
Sbjct: 123 ALLAAQILAIKDPELAEKLAEFREAQTEEVLEDDEELEE 161
>gnl|CDD|223105 COG0026, PurK, Phosphoribosylaminoimidazole carboxylase (NCAIR
synthetase) [Nucleotide transport and metabolism].
Length = 375
Score = 281 bits (720), Expect = 2e-91
Identities = 96/244 (39%), Positives = 142/244 (58%), Gaps = 9/244 (3%)
Query: 3 VNDLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSAITALGGFDRGLYVEKW 62
V+ E A G+P ++K++R YDG+G +S+ +L A +E++
Sbjct: 120 VDSAEELDAAAADLGFPAVLKTRRGGYDGKGQWRIRSDADLELRA-AGLAEGGVPVLEEF 178
Query: 63 APFVKELAVIVVRGRDKSILCYPVVETIHKENICHIVKAPAAVPWKISELATDVAHKAVS 122
PF +E++VIV R D + YPV E +H+ I APA +P + A ++A K
Sbjct: 179 VPFEREISVIVARSNDGEVAFYPVAENVHRNGILRTSIAPARIPDDLQAQAEEMAKKIAE 238
Query: 123 SLEGAGIFAVELFWTNNGQILLNEVAPRPHNSGHHTIESCYTSQFEQHMRAVVGLPLGDP 182
L+ G+ AVE F T +G++L+NE+APR HNSGH TI+ C TSQFEQH+RAV+GLPLG
Sbjct: 239 ELDYVGVLAVEFFVTPDGELLVNEIAPRVHNSGHWTIDGCETSQFEQHLRAVLGLPLGST 298
Query: 183 SMKTPAAIMYNLLGEAEGERGFYLAHQLIGKALSIPGATVHWYDKPEMRQQRKMGHITIV 242
++ +P+ M NLLG+ + + L++PGA +HWY K E R RKMGH+ ++
Sbjct: 299 TLLSPSV-MVNLLGDD----VPPDDVKAV---LALPGAHLHWYGKAEARPGRKMGHVNVL 350
Query: 243 GSSM 246
GS
Sbjct: 351 GSDS 354
>gnl|CDD|144362 pfam00731, AIRC, AIR carboxylase. Members of this family catalyze
the decarboxylation of
1-(5-phosphoribosyl)-5-amino-4-imidazole-carboxylate
(AIR). This family catalyze the sixth step of de novo
purine biosynthesis. Some members of this family contain
two copies of this domain.
Length = 150
Score = 268 bits (689), Expect = 6e-90
Identities = 96/150 (64%), Positives = 120/150 (80%)
Query: 271 PRIGIIMGSDSDLPVMKDAAKILTMFSVPHEVRIVSAHRTPDLMFSYASSAHERGIEIII 330
P++GIIMGSDSDLP M+ AAK+L F +P+EVR+VSAHRTP+ +F YA A RGI++II
Sbjct: 1 PKVGIIMGSDSDLPTMEKAAKVLKEFGIPYEVRVVSAHRTPERLFEYAKEAEARGIKVII 60
Query: 331 AGAGGAAHLPGMVAARTPLPVIGVPVRASALDGLDSLLSIVQMPRGVPVATVAINNATNA 390
AGAGGAAHLPGMVAA T LPVIGVPV++ AL GLDSLLSIVQMP G+PVATVAI A NA
Sbjct: 61 AGAGGAAHLPGMVAALTTLPVIGVPVKSKALGGLDSLLSIVQMPSGIPVATVAIGGAKNA 120
Query: 391 GLLAVRMLGFGDADLRARMQQYMEDMRDDV 420
LLA ++L D +L +++ Y E++ ++V
Sbjct: 121 ALLAAQILALKDPELAEKLEAYREELAEEV 150
>gnl|CDD|130230 TIGR01162, purE, phosphoribosylaminoimidazole carboxylase, PurE
protein. Phosphoribosylaminoimidazole carboxylase is a
fusion protein in plants and fungi, but consists of two
non-interacting proteins in bacteria, PurK and PurE.
This model represents PurK, an N5-CAIR mutase [Purines,
pyrimidines, nucleosides, and nucleotides, Purine
ribonucleotide biosynthesis].
Length = 156
Score = 255 bits (654), Expect = 1e-84
Identities = 105/156 (67%), Positives = 127/156 (81%)
Query: 273 IGIIMGSDSDLPVMKDAAKILTMFSVPHEVRIVSAHRTPDLMFSYASSAHERGIEIIIAG 332
+GIIMGSDSDLP MK AA IL F +P+E+R+VSAHRTP+LM YA A ERGI++IIAG
Sbjct: 1 VGIIMGSDSDLPTMKKAADILEEFGIPYELRVVSAHRTPELMLEYAKEAEERGIKVIIAG 60
Query: 333 AGGAAHLPGMVAARTPLPVIGVPVRASALDGLDSLLSIVQMPRGVPVATVAINNATNAGL 392
AGGAAHLPGMVAA TPLPVIGVPV + AL GLDSLLSIVQMP GVPVATVAI NA NA L
Sbjct: 61 AGGAAHLPGMVAALTPLPVIGVPVPSKALSGLDSLLSIVQMPSGVPVATVAIGNAGNAAL 120
Query: 393 LAVRMLGFGDADLRARMQQYMEDMRDDVLTKAEKLQ 428
LA ++LG D +L ++++Y E+ +++VL K +KL+
Sbjct: 121 LAAQILGIKDPELAEKLKEYRENQKEEVLKKNKKLE 156
>gnl|CDD|214965 smart01001, AIRC, AIR carboxylase. Members of this family catalyse
the decarboxylation of
1-(5-phosphoribosyl)-5-amino-4-imidazole-carboxylate
(AIR). This family catalyse the sixth step of de novo
purine biosynthesis. Some members of this family contain
two copies of this domain.
Length = 152
Score = 240 bits (615), Expect = 9e-79
Identities = 93/152 (61%), Positives = 114/152 (75%), Gaps = 2/152 (1%)
Query: 271 PRIGIIMGSDSDLPVMKDAAKILTMFSVPHEVRIVSAHRTPDLMFSYASSAHERGIEIII 330
P +GIIMGS SDLPVM++AAK L F +P+EV + SAHRTPD +F YA A +RGI++II
Sbjct: 1 PLVGIIMGSTSDLPVMEEAAKTLEEFGIPYEVGVASAHRTPDRLFEYAKEAEDRGIKVII 60
Query: 331 AGAGGAAHLPGMVAARTPLPVIGVPVRASALDGLDSLLSIVQMPRGVPVATVAIN--NAT 388
AGAGGAAHLPG+VAA T LPVIGVPV + L GLDSLLSIVQMP G+PVATVAI A
Sbjct: 61 AGAGGAAHLPGVVAALTTLPVIGVPVSSGYLGGLDSLLSIVQMPSGIPVATVAIGIDGAF 120
Query: 389 NAGLLAVRMLGFGDADLRARMQQYMEDMRDDV 420
NA LLA ++L D +L A++ Y + ++V
Sbjct: 121 NAALLAAQILALNDPELAAKLAAYRINQTEEV 152
>gnl|CDD|216935 pfam02222, ATP-grasp, ATP-grasp domain. This family does not
contain all known ATP-grasp domain members. This family
includes a diverse set of enzymes that possess
ATP-dependent carboxylate-amine ligase activity.
Length = 171
Score = 221 bits (566), Expect = 4e-71
Identities = 72/162 (44%), Positives = 98/162 (60%), Gaps = 2/162 (1%)
Query: 1 MEVNDLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSAITALGGFDRGLYVE 60
LE AG++ GYP ++K++R YDG+G V +SE ++ A LG + VE
Sbjct: 12 AAAESLEELIEAGQELGYPCVLKARRGGYDGKGQYVVRSEADIPQAWEELG--GGPVIVE 69
Query: 61 KWAPFVKELAVIVVRGRDKSILCYPVVETIHKENICHIVKAPAAVPWKISELATDVAHKA 120
++ PF KEL+V+VVR D YP VETI ++ IC APA VP A ++A K
Sbjct: 70 EFVPFDKELSVLVVRSVDGETAFYPPVETIQEDGICRESVAPARVPDSQQAKAQEIAKKI 129
Query: 121 VSSLEGAGIFAVELFWTNNGQILLNEVAPRPHNSGHHTIESC 162
V L G GIF VELF +G +L+NE+APRPHNSGH+T++ C
Sbjct: 130 VDELGGVGIFGVELFVLPDGDLLVNELAPRPHNSGHYTLDGC 171
>gnl|CDD|236454 PRK09288, purT, phosphoribosylglycinamide formyltransferase 2;
Validated.
Length = 395
Score = 111 bits (280), Expect = 4e-27
Identities = 80/256 (31%), Positives = 123/256 (48%), Gaps = 44/256 (17%)
Query: 3 VNDLESAWRAGKQFGYPLMVK----SKRLAYDGRGNAVAKSEEELSSAIT-----ALGGF 53
+ LE A ++ GYP +VK S G+G +V +S E++ A GG
Sbjct: 135 ADSLEELRAAVEEIGYPCVVKPVMSS-----SGKGQSVVRSPEDIEKAWEYAQEGGRGGA 189
Query: 54 DRGLYVEKWAPFVKELAVIVVRGRDKSIL-CYPVVETIHKENICHIVKA--------PAA 104
R + VE++ F E+ ++ VR D C P I H + P
Sbjct: 190 GR-VIVEEFIDFDYEITLLTVRAVDGGTHFCAP---------IGHRQEDGDYRESWQPQP 239
Query: 105 VPWKISELATDVAHKAVSSLEGAGIFAVELFWTNNGQILLNEVAPRPHNSGHHTIESCYT 164
+ E A ++A K +L G G+F VELF + ++ +EV+PRPH++G T+ S
Sbjct: 240 MSPAALEEAQEIAKKVTDALGGRGLFGVELFVKGD-EVYFSEVSPRPHDTGMVTLISQNL 298
Query: 165 SQFEQHMRAVVGLPLGDPSMKTPAA---IMYNLLGEAEGERGFYLAHQLIGKALSIPGAT 221
S+FE H RA++GLP+ D + +PAA I L E E + + +AL++PG
Sbjct: 299 SEFELHARAILGLPIPDIRLYSPAASAVI----LAEGESANPSFDG---LAEALAVPGTD 351
Query: 222 VHWYDKPEMRQQRKMG 237
V + KPE+R R+MG
Sbjct: 352 VRLFGKPEIRGGRRMG 367
>gnl|CDD|223106 COG0027, PurT, Formate-dependent phosphoribosylglycinamide
formyltransferase (GAR transformylase) [Nucleotide
transport and metabolism].
Length = 394
Score = 108 bits (273), Expect = 3e-26
Identities = 66/249 (26%), Positives = 118/249 (47%), Gaps = 30/249 (12%)
Query: 3 VNDLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSA----ITALGGFDRGLY 58
+ LE A ++ G+P +VK ++ G+G +V +S E++ A G +
Sbjct: 135 ADSLEELRAAVEKIGFPCVVKPV-MSSSGKGQSVVRSPEDVEKAWEYAQQGGRGGSGRVI 193
Query: 59 VEKWAPFVKELAVIVVRGRDKS-ILCYPV---------VETIHKENICHIVKAPAAVPWK 108
VE++ F E+ ++ VR D + C P+ E+ P +
Sbjct: 194 VEEFVKFDFEITLLTVRAVDGTGSFCAPIGHRQEDGDYRESWQ----------PQEMSEA 243
Query: 109 ISELATDVAHKAVSSLEGAGIFAVELFWTNNGQILLNEVAPRPHNSGHHTIESCYTSQFE 168
E A +A + +L G G+F VELF + +++ +EV+PRPH++G T+ S S+F
Sbjct: 244 ALEEAQSIAKRVTDALGGRGLFGVELFVKGD-EVIFSEVSPRPHDTGMVTLISQDLSEFA 302
Query: 169 QHMRAVVGLPLGDPSMKTPAAIMYNLLGEAEGERGFYLAHQLIGKALSIPGATVHWYDKP 228
H+RA++GLP+ + +PAA +L + + + + +AL +P V + KP
Sbjct: 303 LHVRAILGLPIPEIRQISPAA-SAVILAQETSQAPTFDG---LAEALGVPDTQVRLFGKP 358
Query: 229 EMRQQRKMG 237
E R++G
Sbjct: 359 EADGGRRLG 367
>gnl|CDD|130212 TIGR01142, purT, phosphoribosylglycinamide formyltransferase 2.
This enzyme is an alternative to PurN (TIGR00639)
[Purines, pyrimidines, nucleosides, and nucleotides,
Purine ribonucleotide biosynthesis].
Length = 380
Score = 107 bits (270), Expect = 6e-26
Identities = 69/240 (28%), Positives = 116/240 (48%), Gaps = 12/240 (5%)
Query: 3 VNDLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSS----AITALGGFDRGLY 58
+ L+ A ++ GYP +VK ++ G+G +V + E++ A G +
Sbjct: 122 ADSLDELREAVEKIGYPCVVKPV-MSSSGKGQSVVRGPEDIEKAWEYAQEGARGGAGRVI 180
Query: 59 VEKWAPFVKELAVIVVRGRDKSIL-CYPVVETIHKENICHIVKAPAAVPWKISELATDVA 117
VE++ F E+ ++ VR D + C P+ + H P + K E A +A
Sbjct: 181 VEEFIDFDYEITLLTVRHVDGNTTFCAPIGH-RQIDGDYHESWQPQEMSEKALEEAQRIA 239
Query: 118 HKAVSSLEGAGIFAVELFWTNNGQILLNEVAPRPHNSGHHTIESCYTSQFEQHMRAVVGL 177
+ +L G G+F VELF +++ +EV+PRPH++G T+ S S+F H+RA++GL
Sbjct: 240 KRITDALGGYGLFGVELF-VKGDEVIFSEVSPRPHDTGMVTLISQGLSEFALHVRAILGL 298
Query: 178 PLGDPSMKTPAAIMYNLLGEAEGERGFYLAHQLIGKALSIPGATVHWYDKPEMRQQRKMG 237
P+ PAA + + G A + + KALS+P V + KPE R++G
Sbjct: 299 PIPGIPQLGPAA-SAVIKAKVTGYS---PAFRGLEKALSVPNTQVRLFGKPEAYVGRRLG 354
>gnl|CDD|233310 TIGR01205, D_ala_D_alaTIGR, D-alanine--D-alanine ligase. This
model describes D-Ala--D-Ala ligase, an enzyme that
makes a required precursor of the bacterial cell wall.
It also describes some closely related proteins
responsible for resistance to glycopeptide antibiotics
such as vancomycin. The mechanism of glyopeptide
antibiotic resistance involves the production of
D-alanine-D-lactate (VanA and VanB families) or
D-alanine-D-serine (VanC). The seed alignment contains
only chromosomally encoded D-ala--D-ala ligases, but a
number of antibiotic resistance proteins score above the
trusted cutoff of this model [Cell envelope,
Biosynthesis and degradation of murein sacculus and
peptidoglycan].
Length = 315
Score = 56.5 bits (137), Expect = 6e-09
Identities = 41/160 (25%), Positives = 75/160 (46%), Gaps = 19/160 (11%)
Query: 4 NDLESAWRAGKQFGYPLMVKSKRLAYDGR--GNAVAKSEEELSSAITALGGFDRGLYVEK 61
D + + G+P++VK R G G + KSEEEL +A+ +D + VE+
Sbjct: 133 ADELECEQVAEPLGFPVIVKPARE---GSSVGVSKVKSEEELQAALDEAFEYDEEVLVEQ 189
Query: 62 WAPFVKELAVIVVRGRDKSILCYPVVETI-------HK---ENICHIVKAPAAVPWKISE 111
+ +EL V ++ G ++++ +V I K + +++ PA + ++ E
Sbjct: 190 FIK-GRELEVSIL-GNEEALPIIEIVPEIEGFYDYEAKYLDGSTEYVI--PAPLDEELEE 245
Query: 112 LATDVAHKAVSSLEGAGIFAVELFWTNNGQILLNEVAPRP 151
++A KA +L G+ V+ F G+I LNE+ P
Sbjct: 246 KIKELALKAYKALGCRGLARVDFFLDEEGEIYLNEINTIP 285
>gnl|CDD|203643 pfam07478, Dala_Dala_lig_C, D-ala D-ala ligase C-terminus. This
family represents the C-terminal, catalytic domain of
the D-alanine--D-alanine ligase enzyme EC:6.3.2.4.
D-Alanine is one of the central molecules of the
cross-linking step of peptidoglycan assembly. There are
three enzymes involved in the D-alanine branch of
peptidoglycan biosynthesis: the pyridoxal
phosphate-dependent D-alanine racemase (Alr), the
ATP-dependent D-alanine:D-alanine ligase (Ddl), and the
ATP-dependent D-alanine:D-alanine-adding enzyme (MurF).
Length = 201
Score = 54.6 bits (132), Expect = 1e-08
Identities = 42/149 (28%), Positives = 65/149 (43%), Gaps = 18/149 (12%)
Query: 15 QFGYPLMVKSKRLAYDGRGNAVAKSEEELSSAITALGGFDRGLYVEKWAPFVKELAVIVV 74
+ GYP+ VK L G + S EEL SAI +D + +E+ +E+ V+
Sbjct: 31 KLGYPVFVKPANLG-SSVGISKVTSREELQSAIEEAFQYDNKVLIEEAIE-GREIECAVL 88
Query: 75 RGRDKSILCYPVVETIHK------------ENICHIVKAPAAVPWKISELATDVAHKAVS 122
D + PV E + IV PA +P ++ E ++A KA
Sbjct: 89 GNEDLEVS--PVGEIRLSGGFYDYEAKYIDSSAQIIV--PADLPEEVEEQIQELALKAYK 144
Query: 123 SLEGAGIFAVELFWTNNGQILLNEVAPRP 151
+L G+ ++ F T +G+I LNEV P
Sbjct: 145 ALGCRGLARIDFFLTEDGEIYLNEVNTMP 173
>gnl|CDD|224605 COG1691, COG1691, NCAIR mutase (PurE)-related proteins [General
function prediction only].
Length = 254
Score = 55.1 bits (133), Expect = 1e-08
Identities = 38/134 (28%), Positives = 62/134 (46%), Gaps = 12/134 (8%)
Query: 272 RIGIIMGSDSDLPVMKDAAKILTMFSVP----HEVRIVSAHRTPDLMFSYASSAHERGIE 327
++G++ SDLPV ++AA V ++V + HR + S +
Sbjct: 119 KVGVLSAGTSDLPVAEEAAVTAEELGVEVQKVYDVGVAGIHR----LLSALKRLKIEDAD 174
Query: 328 IIIAGAGGAAHLPGMVAARTPLPVIGVPVRAS---ALDGLDSLLSIVQMPRGVPVATVAI 384
++I AG LP +VA +PVI VP G+ +LL+++Q V V I
Sbjct: 175 VLIVVAGMEGALPSVVAGLVDVPVIAVPTSVGYGAGGGGIAALLTMLQSC-SPGVGVVNI 233
Query: 385 NNATNAGLLAVRML 398
+N A +LAV++L
Sbjct: 234 DNGFGAAVLAVQIL 247
>gnl|CDD|224102 COG1181, DdlA, D-alanine-D-alanine ligase and related ATP-grasp
enzymes [Cell envelope biogenesis, outer membrane].
Length = 317
Score = 48.0 bits (115), Expect = 4e-06
Identities = 38/159 (23%), Positives = 63/159 (39%), Gaps = 24/159 (15%)
Query: 16 FGYPLMVKSKRLAYDGRGNAV----AKSEEELSSAITALGGFDRGLYVEKWAPFVKELAV 71
G+PL VK R G++V E +L SA+ +DR + E+ +E+ V
Sbjct: 141 LGFPLFVKPARE-----GSSVGRSPVNVEGDLQSALELAFKYDRDVLREQGIT-GREIEV 194
Query: 72 IVVRGRDKSILCYPVVETIHKENICH------------IVKAPAAVPWKISELATDVAHK 119
V+ G D P+ E K + PA + +I E ++A +
Sbjct: 195 GVL-GNDYEEQALPLGEIPPKGEEFYDYEAKYLSTGGAQYDIPAGLTDEIHEEIKELALR 253
Query: 120 AVSSLEGAGIFAVELFWT-NNGQILLNEVAPRPHNSGHH 157
A +L G+ V+ F + G+ +L EV P +
Sbjct: 254 AYKALGCLGLARVDFFVDDDEGEFVLLEVNTNPGMTAMS 292
>gnl|CDD|131199 TIGR02144, LysX_arch, Lysine biosynthesis enzyme LysX. The family
of proteins found in this equivalog include the
characterized LysX from Thermus thermophilus which is
part of a well-organized lysine biosynthesis gene
cluster. LysX is believed to carry out an ATP-dependent
acylation of the amino group of alpha-aminoadipate in
the prokaryotic version of the fungal AAA lysine
biosynthesis pathway. No species having a sequence in
this equivalog contains the elements of the more common
diaminopimelate lysine biosythesis pathway, and none has
been shown to be a lysine auxotroph. These sequences
have mainly recieved the name of the related enzyme,
"ribosomal protein S6 modification protein RimK". RimK
has been characterized in E. coli, and acts by
ATP-dependent condensation of S6 with glutamate
residues.
Length = 280
Score = 41.6 bits (98), Expect = 5e-04
Identities = 39/157 (24%), Positives = 76/157 (48%), Gaps = 22/157 (14%)
Query: 5 DLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSAI---TALGGFDRGLYVEK 61
D E+A + + GYP+++K ++ GR A+ + ++EL S + LGG L+
Sbjct: 110 DREAALKLAEALGYPVVLKPVIGSW-GRLVALIRDKDELESLLEHKEVLGGSQHKLF--- 165
Query: 62 WAPFVKELAVIVVRGRDKSILCYPVVET----IHKEN---ICHIVKAPAAVPWKISELAT 114
+++E I GRD I + + + I++ + + + A P + E
Sbjct: 166 ---YIQEY--INKPGRD--IRVFVIGDEAIAAIYRYSNHWRTNTARGGKAEPCPLDEEVE 218
Query: 115 DVAHKAVSSLEGAGIFAVELFWTNNGQILLNEVAPRP 151
++A KA ++ G G+ A+++F + +L+NEV P
Sbjct: 219 ELAVKAAEAV-GGGVVAIDIFESKERGLLVNEVNHVP 254
>gnl|CDD|234993 PRK01966, ddl, D-alanyl-alanine synthetase A; Reviewed.
Length = 333
Score = 41.6 bits (99), Expect = 5e-04
Identities = 43/156 (27%), Positives = 69/156 (44%), Gaps = 39/156 (25%)
Query: 14 KQFGYPLMVKSKRLAYDGRGNAV----AKSEEELSSAITALGGFDRGLYVEKWAPFVK-- 67
+ G P+ VK L G++V K+EEEL++A+ +DR + VE +K
Sbjct: 159 AKLGLPVFVKPANL-----GSSVGISKVKNEEELAAALDLAFEYDRKVLVE---QGIKGR 210
Query: 68 --ELAVIVVRGRDKSILCYPVVETIHKEN--------------ICHIVKAPAAVPWKISE 111
E AV+ G D V I K + I PA + +++E
Sbjct: 211 EIECAVL---GNDPKAS---VPGEIVKPDDFYDYEAKYLDGSAELII---PADLSEELTE 261
Query: 112 LATDVAHKAVSSLEGAGIFAVELFWTNNGQILLNEV 147
++A KA +L +G+ V+ F T +G+I LNE+
Sbjct: 262 KIRELAIKAFKALGCSGLARVDFFLTEDGEIYLNEI 297
>gnl|CDD|236307 PRK08591, PRK08591, acetyl-CoA carboxylase biotin carboxylase
subunit; Validated.
Length = 451
Score = 41.7 bits (99), Expect = 6e-04
Identities = 24/69 (34%), Positives = 35/69 (50%), Gaps = 13/69 (18%)
Query: 2 EVNDLESAWRAGKQFGYPLMVKSKRLAY---DGRGNAVAKSEEELSSAIT-----ALGGF 53
V+D E A K+ GYP+++K A GRG V ++E EL A + A F
Sbjct: 137 PVDDEEEALAIAKEIGYPVIIK----ATAGGGGRGMRVVRTEAELEKAFSMARAEAKAAF 192
Query: 54 -DRGLYVEK 61
+ G+Y+EK
Sbjct: 193 GNPGVYMEK 201
>gnl|CDD|233121 TIGR00768, rimK_fam, alpha-L-glutamate ligases, RimK family. This
family, related to bacterial glutathione synthetases,
contains at least two different alpha-L-glutamate
ligases. One is RimK, as in E. coli, which adds
additional Glu residues to the native Glu-Glu C-terminus
of ribosomal protein S6, but not to Lys-Glu mutants.
Most species with a member of this subfamily lack an S6
homolog ending in Glu-Glu, however. Members in
Methanococcus jannaschii act instead as a
tetrahydromethanopterin:alpha-l-glutamate ligase
(MJ0620) and a gamma-F420-2:alpha-l-glutamate ligase
(MJ1001).
Length = 277
Score = 40.0 bits (94), Expect = 0.001
Identities = 33/159 (20%), Positives = 73/159 (45%), Gaps = 25/159 (15%)
Query: 5 DLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSAITA---LGGFDRGLYVEK 61
E A + ++ G+P+++K ++ GR ++A+ ++ + + L G YV++
Sbjct: 111 SPEEALKLIEEIGFPVVLKPVFGSW-GRLVSLARDKQAAETLLEHFEQLNGPQNLFYVQE 169
Query: 62 WAPFVKE-----LAVIVVRGRDKSILCYPVVETIHKEN----ICHIVKAPAAVPWKISEL 112
++K+ + V VV V+ I++ ++ + A P ++E
Sbjct: 170 ---YIKKPGGRDIRVFVVGDE--------VIAAIYRITSGHWRTNLARGGKAEPCPLTEE 218
Query: 113 ATDVAHKAVSSLEGAGIFAVELFWTNNGQILLNEVAPRP 151
++A KA +L G + ++L + + +L+NEV P P
Sbjct: 219 IEELAIKAAKAL-GLDVVGIDLLESEDRGLLVNEVNPNP 256
>gnl|CDD|184750 PRK14568, vanB, D-alanine--D-lactate ligase; Provisional.
Length = 343
Score = 40.1 bits (94), Expect = 0.002
Identities = 45/185 (24%), Positives = 76/185 (41%), Gaps = 34/185 (18%)
Query: 15 QFGYPLMVKSKRLAYDGRGNAVAK--SEEELSSAITALGGFDRGLYVEKWAPFVKELAVI 72
YP+ VK R G V+K S +EL AI + +D + +E+ A E+
Sbjct: 163 TLTYPVFVKPAR---SGSSFGVSKVNSADELDYAIESARQYDSKVLIEE-AVVGSEVGCA 218
Query: 73 VVRGRDKSILCYPVVET--------IHKE--------NICHIVKAPAAVPWKISELATDV 116
V+ G ++ V + IH+E N IV PA + + +
Sbjct: 219 VL-GNGADLVVGEVDQIRLSHGFFRIHQENEPEKGSENSTIIV--PADISAEERSRVQET 275
Query: 117 AHKAVSSLEGAGIFAVELFWTNNGQILLNEVAPRPHNSGHHTIESCYTSQFEQHMRAVVG 176
A +L G+ V++F +G ++LNEV P + + S++ + M A G
Sbjct: 276 AKAIYRALGCRGLARVDMFLQEDGTVVLNEVNTLPGFTSY--------SRYPR-MMAAAG 326
Query: 177 LPLGD 181
+PL +
Sbjct: 327 IPLAE 331
>gnl|CDD|190425 pfam02786, CPSase_L_D2, Carbamoyl-phosphate synthase L chain, ATP
binding domain. Carbamoyl-phosphate synthase catalyzes
the ATP-dependent synthesis of carbamyl-phosphate from
glutamine or ammonia and bicarbonate. This important
enzyme initiates both the urea cycle and the
biosynthesis of arginine and/or pyrimidines. The
carbamoyl-phosphate synthase (CPS) enzyme in prokaryotes
is a heterodimer of a small and large chain. The small
chain promotes the hydrolysis of glutamine to ammonia,
which is used by the large chain to synthesise carbamoyl
phosphate. See pfam00988. The small chain has a GATase
domain in the carboxyl terminus. See pfam00117. The ATP
binding domain (this one) has an ATP-grasp fold.
Length = 211
Score = 39.2 bits (92), Expect = 0.002
Identities = 25/81 (30%), Positives = 38/81 (46%), Gaps = 11/81 (13%)
Query: 3 VNDLESAWRAGKQFGYPLMVKSKRLAY--DGRGNAVAKSEEELSSAIT-----ALGGFDR 55
V E A A K+ GYP+++K+ A+ G G +A++EEEL+ A F
Sbjct: 24 VETEEEALAAAKEIGYPVIIKA---AFGGGGLGMGIARNEEELAELFALALAEAPAAFGN 80
Query: 56 G-LYVEKWAPFVKELAVIVVR 75
+ VEK K + V+R
Sbjct: 81 PQVLVEKSLKGPKHIEYQVLR 101
>gnl|CDD|223968 COG1038, PycA, Pyruvate carboxylase [Energy production and
conversion].
Length = 1149
Score = 38.1 bits (89), Expect = 0.009
Identities = 21/65 (32%), Positives = 33/65 (50%), Gaps = 7/65 (10%)
Query: 3 VNDLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSAIT-----ALGGFDRG- 56
+ +E A +++GYP+M+K+ GRG V +SE +L+ A A F
Sbjct: 144 IETIEEALEFAEEYGYPVMIKAA-AGGGGRGMRVVRSEADLAEAFERAKSEAKAAFGNDE 202
Query: 57 LYVEK 61
+YVEK
Sbjct: 203 VYVEK 207
>gnl|CDD|223516 COG0439, AccC, Biotin carboxylase [Lipid metabolism].
Length = 449
Score = 38.0 bits (89), Expect = 0.009
Identities = 44/170 (25%), Positives = 67/170 (39%), Gaps = 35/170 (20%)
Query: 2 EVNDLESAWRAGKQFGYPLMVKSKRLAYD--GRGNAVAKSEEELSSAITALGGF------ 53
V D E A ++ GYP++VK A GRG V ++EEEL +A A G
Sbjct: 137 AVADNEEALAIAEEIGYPVIVK---AAAGGGGRGMRVVRNEEELEAAFEAARGEAEAAFG 193
Query: 54 DRGLYVEKW---APFV-------KELAVIVVRGRDKSILCYPVVETIHKENICHIVKAPA 103
+ +Y+EK+ + VI + RD SI H++ I +P
Sbjct: 194 NPRVYLEKFIEGPRHIEVQVLGDGHGNVIHLGERDCSI--QRR----HQKVI-EEAPSPL 246
Query: 104 AVPWKISELATDVAHKAVSSLEG---AGIFAVELFWTNNGQILLNEVAPR 150
EL + AV + + G VE + +NG+ E+ R
Sbjct: 247 LTE----ELREKIGEAAVRAAKLIGYRGAGTVEFLYDSNGEFYFIEMNTR 292
>gnl|CDD|180150 PRK05586, PRK05586, biotin carboxylase; Validated.
Length = 447
Score = 37.0 bits (86), Expect = 0.017
Identities = 25/67 (37%), Positives = 35/67 (52%), Gaps = 7/67 (10%)
Query: 2 EVNDLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSAIT-----ALGGF-DR 55
E+ + E A K+ GYP+MVK+ GRG + +SEEEL A A F D
Sbjct: 137 EIENEEEALEIAKEIGYPVMVKASA-GGGGRGIRIVRSEEELIKAFNTAKSEAKAAFGDD 195
Query: 56 GLYVEKW 62
+Y+EK+
Sbjct: 196 SMYIEKF 202
>gnl|CDD|129605 TIGR00514, accC, acetyl-CoA carboxylase, biotin carboxylase
subunit. This model represents the biotin carboxylase
subunit found usually as a component of acetyl-CoA
carboxylase. Acetyl-CoA carboxylase is designated EC
6.4.1.2 and this component, biotin carboxylase, has its
own designation, EC 6.3.4.14. Homologous domains are
found in eukaryotic forms of acetyl-CoA carboxylase and
in a number of other carboxylases (e.g. pyruvate
carboxylase), but seed members and trusted cutoff are
selected so as to exclude these. In some systems, the
biotin carboxyl carrier protein and this protein (biotin
carboxylase) may be shared by different
carboxyltransferases. However, this model is not
intended to identify the biotin carboxylase domain of
propionyl-coA carboxylase. The model should hit the full
length of proteins, except for chloroplast transit
peptides in plants. If it hits a domain only of a longer
protein, there may be a problem with the identification
[Fatty acid and phospholipid metabolism, Biosynthesis].
Length = 449
Score = 37.0 bits (86), Expect = 0.017
Identities = 22/66 (33%), Positives = 35/66 (53%), Gaps = 7/66 (10%)
Query: 3 VNDLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSAIT-----ALGGF-DRG 56
V D E R K+ GYP+++K+ GRG V + +EL +I+ A F + G
Sbjct: 138 VEDEEENVRIAKRIGYPVIIKATA-GGGGRGMRVVREPDELVKSISMTRAEAKAAFGNDG 196
Query: 57 LYVEKW 62
+Y+EK+
Sbjct: 197 VYIEKY 202
>gnl|CDD|183781 PRK12833, PRK12833, acetyl-CoA carboxylase biotin carboxylase
subunit; Provisional.
Length = 467
Score = 37.0 bits (86), Expect = 0.018
Identities = 23/80 (28%), Positives = 36/80 (45%), Gaps = 11/80 (13%)
Query: 2 EVNDLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEEL--------SSAITALGGF 53
V L++A + GYPLM+K+ GRG VA +L A A G
Sbjct: 140 VVASLDAALEVAARIGYPLMIKAAA-GGGGRGIRVAHDAAQLAAELPLAQREAQAAFG-- 196
Query: 54 DRGLYVEKWAPFVKELAVIV 73
D G+Y+E++ + + V +
Sbjct: 197 DGGVYLERFIARARHIEVQI 216
>gnl|CDD|130302 TIGR01235, pyruv_carbox, pyruvate carboxylase. This enzyme plays a
role in gluconeogensis but not glycolysis [Energy
metabolism, Glycolysis/gluconeogenesis].
Length = 1143
Score = 37.1 bits (86), Expect = 0.020
Identities = 40/160 (25%), Positives = 70/160 (43%), Gaps = 17/160 (10%)
Query: 3 VNDLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSAIT-----ALGGFDRG- 56
+E GYP+++K+ GRG V +SE +++ A A F
Sbjct: 138 PETMEEVLDFAAAIGYPVIIKAS-WGGGGRGMRVVRSEADVADAFQRAKSEAKAAFGNDE 196
Query: 57 LYVEKWAPFVKELAVIVVRGRDKSIL-CYPVVETIHKENICHIVKAPA-----AVPWKIS 110
+YVEK + + V ++ + +++ + ++ + + + APA V +I+
Sbjct: 197 VYVEKLIERPRHIEVQLLGDKHGNVVHLFERDCSVQRRHQKVVEVAPAPYLSREVRDEIA 256
Query: 111 ELATDVAHKAVSSLEGAGIFAVELFWTNNGQILLNEVAPR 150
E A +A KAV + AG VE N+G+ EV PR
Sbjct: 257 EYAVKLA-KAV-NYINAG--TVEFLVDNDGKFYFIEVNPR 292
>gnl|CDD|237263 PRK12999, PRK12999, pyruvate carboxylase; Reviewed.
Length = 1146
Score = 36.3 bits (85), Expect = 0.032
Identities = 22/65 (33%), Positives = 35/65 (53%), Gaps = 7/65 (10%)
Query: 3 VNDLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSAIT-----ALGGF-DRG 56
++D+E A ++ GYP+M+K+ GRG + +SEEEL A A F +
Sbjct: 142 IDDIEEALEFAEEIGYPIMLKAS-AGGGGRGMRIVRSEEELEEAFERAKREAKAAFGNDE 200
Query: 57 LYVEK 61
+Y+EK
Sbjct: 201 VYLEK 205
>gnl|CDD|236269 PRK08462, PRK08462, biotin carboxylase; Validated.
Length = 445
Score = 35.5 bits (82), Expect = 0.056
Identities = 21/68 (30%), Positives = 35/68 (51%), Gaps = 11/68 (16%)
Query: 3 VNDLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEEL--------SSAITALGGFD 54
+ E A + K+ GYP+++K+ GRG V + E +L S A++A G D
Sbjct: 140 LKSYEEAKKIAKEIGYPVILKAAA-GGGGRGMRVVEDESDLENLYLAAESEALSAFG--D 196
Query: 55 RGLYVEKW 62
+Y+EK+
Sbjct: 197 GTMYMEKF 204
>gnl|CDD|237215 PRK12815, carB, carbamoyl phosphate synthase large subunit;
Reviewed.
Length = 1068
Score = 34.2 bits (79), Expect = 0.16
Identities = 38/156 (24%), Positives = 67/156 (42%), Gaps = 18/156 (11%)
Query: 4 NDLESAWRAGKQFGYPLMVKSKRLAY--DGRGNAVAKSEEELSSAITALGGFDRGLYVEK 61
D E A+ K+ GYP+++ R +Y G+G AV E L + + + +++
Sbjct: 692 TDEEEAFAFAKRIGYPVLI---RPSYVIGGQGMAVVYDEPALEAYLAENASQLYPILIDQ 748
Query: 62 WAPFVKELAVIVVRGRDKSILCYP-VVETIHK------ENICHIVKAPAAVPWKISELAT 114
+ + + G D +I P ++E I + ++I V P ++ + E
Sbjct: 749 FIDGKEYEVDAISDGEDVTI---PGIIEHIEQAGVHSGDSIA--VLPPQSLSEEQQEKIR 803
Query: 115 DVAHKAVSSLEGAGIFAVELFWTNNGQILLNEVAPR 150
D A K L GI ++ F N +I + EV PR
Sbjct: 804 DYAIKIAKKLGFRGIMNIQ-FVLANDEIYVLEVNPR 838
>gnl|CDD|180406 PRK06111, PRK06111, acetyl-CoA carboxylase biotin carboxylase
subunit; Validated.
Length = 450
Score = 33.5 bits (77), Expect = 0.22
Identities = 21/63 (33%), Positives = 32/63 (50%), Gaps = 7/63 (11%)
Query: 5 DLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSAIT-----ALGGFDRG-LY 58
D E A +Q GYP+M+K+ G G + ++E+EL+ A A F G +Y
Sbjct: 140 DAEEAIAIARQIGYPVMLKASA-GGGGIGMQLVETEQELTKAFESNKKRAANFFGNGEMY 198
Query: 59 VEK 61
+EK
Sbjct: 199 IEK 201
>gnl|CDD|236325 PRK08654, PRK08654, pyruvate carboxylase subunit A; Validated.
Length = 499
Score = 33.4 bits (77), Expect = 0.22
Identities = 22/66 (33%), Positives = 34/66 (51%), Gaps = 7/66 (10%)
Query: 3 VNDLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSAI-----TALGGF-DRG 56
+ D+E A ++ GYP+++K+ G G V SEEEL AI A F D
Sbjct: 138 IEDIEEAKEIAEEIGYPVIIKASA-GGGGIGMRVVYSEEELEDAIESTQSIAQSAFGDST 196
Query: 57 LYVEKW 62
+++EK+
Sbjct: 197 VFIEKY 202
>gnl|CDD|233379 TIGR01369, CPSaseII_lrg, carbamoyl-phosphate synthase, large
subunit. Carbamoyl-phosphate synthase (CPSase)
catalyzes the first committed step in pyrimidine,
arginine, and urea biosynthesis. In general, it is a
glutamine-dependent enzyme, EC 6.3.5.5, termed CPSase II
in eukaryotes. An exception is the mammalian
mitochondrial urea-cycle form, CPSase I, in which the
glutamine amidotransferase domain active site Cys on the
small subunit has been lost, and the enzyme is
ammonia-dependent. In both CPSase I and the closely
related, glutamine-dependent CPSase III (allosterically
activated by acetyl-glutamate) demonstrated in some
other vertebrates, the small and large chain regions are
fused in a single polypeptide chain. This model
represents the large chain of glutamine-hydrolysing
carbamoyl-phosphate synthases, or the corresponding
regions of larger, multifunctional proteins, as found in
all domains of life, and CPSase I forms are considered
exceptions within the family. In several thermophilic
species (Methanobacterium thermoautotrophicum,
Methanococcus jannaschii, Aquifex aeolicus), the large
subunit appears split, at different points, into two
separate genes [Purines, pyrimidines, nucleosides, and
nucleotides, Pyrimidine ribonucleotide biosynthesis].
Length = 1050
Score = 33.8 bits (78), Expect = 0.23
Identities = 35/160 (21%), Positives = 66/160 (41%), Gaps = 17/160 (10%)
Query: 1 MEVNDLESAWRAGKQFGYPLMVKSKRLAY--DGRGNAVAKSEEELS---SAITALGGFDR 55
+E A + GYP++V R +Y GR + +EEEL + +
Sbjct: 688 KTATSVEEAVEFASEIGYPVLV---RPSYVLGGRAMEIVYNEEELRRYLEEAVEVSP-EH 743
Query: 56 GLYVEKWAPFVKELAVIVVRGRDKSILCYPVVETIHKENICH-----IVKAPAAVPWKIS 110
+ ++K+ E+ V V + +L ++E I + + H V P + +I
Sbjct: 744 PVLIDKYLEDAVEVDVDAV-SDGEEVLIPGIMEHIEEAGV-HSGDSTCVLPPQTLSAEIV 801
Query: 111 ELATDVAHKAVSSLEGAGIFAVELFWTNNGQILLNEVAPR 150
+ D+ K L G+ ++ F +G++ + EV PR
Sbjct: 802 DRIKDIVRKIAKELNVKGLMNIQ-FAVKDGEVYVIEVNPR 840
Score = 31.9 bits (73), Expect = 0.89
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 5/44 (11%)
Query: 3 VNDLESAWRAGKQFGYPLMVKSKRLAYD--GRGNAVAKSEEELS 44
+ +E A A K+ GYP++V R A+ G G +A + EEL
Sbjct: 148 AHSVEEALAAAKEIGYPVIV---RPAFTLGGTGGGIAYNREELK 188
>gnl|CDD|237586 PRK14016, PRK14016, cyanophycin synthetase; Provisional.
Length = 727
Score = 33.6 bits (78), Expect = 0.26
Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 8/66 (12%)
Query: 3 VNDLESAWRAGKQFGYPLMVKSKRLAYDG-RGNAVA---KSEEELSSAITALGGFDRGLY 58
V E AW A ++ GYP++VK DG G V + EE+ +A +
Sbjct: 235 VTSAEDAWEAAEEIGYPVVVKP----LDGNHGRGVTVNITTREEIEAAYAVASKESSDVI 290
Query: 59 VEKWAP 64
VE++ P
Sbjct: 291 VERYIP 296
>gnl|CDD|222206 pfam13535, ATP-grasp_4, ATP-grasp domain. This family includes a
diverse set of enzymes that possess ATP-dependent
carboxylate-amine ligase activity.
Length = 183
Score = 31.9 bits (73), Expect = 0.42
Identities = 37/165 (22%), Positives = 64/165 (38%), Gaps = 27/165 (16%)
Query: 3 VNDLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSAITALGG---FDRGLYV 59
V+D E A ++ G+P+++K + A G S EL +A+ AL R V
Sbjct: 25 VDDEEDLDAAAEEIGFPVVLKPRDGAG-SLGVFRVDSAAELEAALAALAAEVEDTREYLV 83
Query: 60 EKWAPFV--KELAV--IVVRGRDKSILCYPVVETIHK----ENICHIVKAPAAVPW---- 107
E ++ E V +V G V + +
Sbjct: 84 E---EYIDGDEYHVDGLVDDGE-------LVFLGVSRYLGPPPPDFSEGVELGSVSPGED 133
Query: 108 KISELATDVAHKAVSSLE-GAGIFAVELFWTNNGQILLNEVAPRP 151
+ E ++A + + +L G+F +E F T +G+ +L E+ PRP
Sbjct: 134 PLPEALRELAERVLKALGLRNGVFHLEFFLTPDGRPVLLEINPRP 178
>gnl|CDD|233705 TIGR02068, cya_phycin_syn, cyanophycin synthetase. Cyanophycin is
an insoluble storage polymer for carbon, nitrogen, and
energy, found in most Cyanobacteria. The polymer has a
backbone of L-aspartic acid, with most Asp side chain
carboxyl groups attached to L-arginine. The polymer is
made by this enzyme, cyanophycin synthetase, and
degraded by cyanophycinase. Heterologously expressed
cyanophycin synthetase in E. coli produces a closely
related, water-soluble polymer with some Arg replaced by
Lys. It is unclear whether enzymes that produce soluble
cyanophycin-like polymers in vivo in non-Cyanobacterial
species should be designated as cyanophycin synthetase
itself or as a related enzyme. This model makes the
designation as cyanophycin synthetase. Cyanophycin
synthesis is analogous to polyhydroxyalkanoic acid (PHA)
biosynthesis, except that PHA polymers lack nitrogen and
may be made under nitrogen-limiting conditions [Cellular
processes, Biosynthesis of natural products].
Length = 864
Score = 32.4 bits (74), Expect = 0.50
Identities = 24/79 (30%), Positives = 40/79 (50%), Gaps = 9/79 (11%)
Query: 3 VNDLESAWRAGKQFGYPLMVKSKRLAYD---GRGNAV-AKSEEELSSAITALGGFDRGLY 58
V E AW A + GYP+++K YD GRG + + +E+ SA A G+
Sbjct: 234 VQSAEDAWEAAQDLGYPVVIK----PYDGNHGRGVTINILTRDEIESAYEAAVEESSGVI 289
Query: 59 VEKWAPFVKELAVIVVRGR 77
VE++ ++ ++VV G+
Sbjct: 290 VERFITG-RDHRLLVVGGK 307
>gnl|CDD|240946 cd12502, RRM2_RMB19, RNA recognition motif 2 in RNA-binding
protein 19 (RBM19) and similar proteins. This
subfamily corresponds to the RRM2 of RBM19, also termed
RNA-binding domain-1 (RBD-1), a nucleolar protein
conserved in eukaryotes. It is involved in ribosome
biogenesis by processing rRNA and is also essential for
preimplantation development. RBM19 has a unique domain
organization containing 6 conserved RNA recognition
motifs (RRMs), also termed RBDs (RNA binding domains)
or RNPs (ribonucleoprotein domains). .
Length = 72
Score = 29.6 bits (67), Expect = 0.53
Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 6/53 (11%)
Query: 14 KQFGYPLMVKSKRLAYDGRGNAVA------KSEEELSSAITALGGFDRGLYVE 60
++F PL + R+ + G KSEE+L A+ + G Y+E
Sbjct: 18 REFFSPLKPVAIRIVKNDHGRKTGFAFVDLKSEEDLKKALKRNKDYMGGRYIE 70
>gnl|CDD|235393 PRK05294, carB, carbamoyl phosphate synthase large subunit;
Reviewed.
Length = 1066
Score = 32.4 bits (75), Expect = 0.58
Identities = 13/43 (30%), Positives = 24/43 (55%), Gaps = 5/43 (11%)
Query: 3 VNDLESAWRAGKQFGYPLMVKSKRLAYD--GRGNAVAKSEEEL 43
+ +E A ++ GYP+++ R ++ G G +A +EEEL
Sbjct: 149 AHSMEEALEVAEEIGYPVII---RPSFTLGGTGGGIAYNEEEL 188
>gnl|CDD|227111 COG4770, COG4770, Acetyl/propionyl-CoA carboxylase, alpha subunit
[Lipid metabolism].
Length = 645
Score = 31.9 bits (73), Expect = 0.67
Identities = 15/66 (22%), Positives = 30/66 (45%), Gaps = 7/66 (10%)
Query: 2 EVNDLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSAIT-----ALGGFDRG 56
+ D ++ GYP+++K+ G+G V ++ EE + A+ A F
Sbjct: 137 PIQDAAELVAIAEEIGYPVLIKA-SAGGGGKGMRVVETPEEFAEALESARREAKASFGDD 195
Query: 57 -LYVEK 61
+++EK
Sbjct: 196 RVFIEK 201
>gnl|CDD|107248 cd01391, Periplasmic_Binding_Protein_Type_1, Type 1 periplasmic
binding fold superfamily. Type 1 periplasmic binding
fold superfamily. This model and hierarchy represent the
ligand binding domains of the LacI family of
transcriptional regulators, periplasmic binding proteins
of the ABC-type transport systems, the family C
G-protein couples receptors (GPCRs), membrane bound
guanylyl cyclases including the family of natriuretic
peptide receptors (NPRs), and the N-terminal
leucine/isoleucine/valine- binding protein (LIVBP)-like
domains of the ionotropic glutamate receptors (iGluRs).
In LacI-like transcriptional regulator and the bacterial
periplasmic binding proteins the ligands are
monosaccharides including lactose, ribose, fructose,
xylose, arabinose, galactose/glucose, and other sugars,
with a few exceptions. Periplasmic sugar binding
proteins are one of the components of ABC transporters
and are involved in the active transport of
water-soluble ligands. The LacI family of proteins
consists of transcriptional regulators related to the
lac repressor. In this case, the sugar binding domain
binds a sugar which changes the DNA binding activity of
the repressor domain. The periplasmic binding proteins
are the primary receptors for chemotaxis and transport
of many sugar based solutes. The core structures of
periplasmic binding proteins are classified into two
types, and they differ in number and order of beta
strands: type 1 has six beta strands, while type 2 has
five beta strands per sub-domain. These two structural
folds are thought to be distantly related via a common
ancestor. Notably, while the N-terminal LIVBP-like
domain of iGluRs belongs to the type 1
periplasmic-binding fold protein superfamily, the
glutamate-binding domain of the iGluR is structurally
similar to the type 2 periplasmic-binding fold.
Length = 269
Score = 30.6 bits (69), Expect = 1.2
Identities = 19/109 (17%), Positives = 42/109 (38%), Gaps = 11/109 (10%)
Query: 272 RIGIIMGSDSDLP-------VMKDAAKILTMFSVPHEVRIVSAHRTPDLMFSYASSAHER 324
+IG+++ P ++ AA+ + EV + + P+ ++
Sbjct: 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI---GRGLEVILADSQSDPERALEALRDLIQQ 57
Query: 325 GIE-IIIAGAGGAAHLPGMVAARTPLPVIGVPVRASALDGLDSLLSIVQ 372
G++ II + +A +AA +PV+ + A L G + +
Sbjct: 58 GVDGIIGPPSSSSALAVVELAAAAGIPVVSLDATAPDLTGYPYVFRVGP 106
>gnl|CDD|217224 pfam02776, TPP_enzyme_N, Thiamine pyrophosphate enzyme, N-terminal
TPP binding domain.
Length = 172
Score = 30.3 bits (69), Expect = 1.3
Identities = 19/85 (22%), Positives = 31/85 (36%), Gaps = 5/85 (5%)
Query: 317 YASSAHERGIEIIIAGAGGAAHLPGMVAA---RTPLPVIG--VPVRASALDGLDSLLSIV 371
YA + + G+ ++ +G G L G+ A P+ VI VP GL L +
Sbjct: 58 YARATGKPGVVLVTSGPGATNALTGLANAYVDGIPVLVISGQVPTSDLGRGGLQEELDQL 117
Query: 372 QMPRGVPVATVAINNATNAGLLAVR 396
+ R V + + R
Sbjct: 118 ALFRPVTKWAERVTSPDEIPEALDR 142
>gnl|CDD|216282 pfam01071, GARS_A, Phosphoribosylglycinamide synthetase,
ATP-grasp (A) domain. Phosphoribosylglycinamide
synthetase catalyzes the second step in the de novo
biosynthesis of purine. The reaction catalyzed by
Phosphoribosylglycinamide synthetase is the ATP-
dependent addition of 5-phosphoribosylamine to glycine
to form 5'phosphoribosylglycinamide. This domain is
related to the ATP-grasp domain of biotin
carboxylase/carbamoyl phosphate synthetase (see
pfam02786).
Length = 193
Score = 29.9 bits (68), Expect = 1.6
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 4/49 (8%)
Query: 2 EVNDLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSAITAL 50
D E A ++ G+P +VK+ LA G+G VA EE AI A+
Sbjct: 22 TFTDPEEAKSYIREAGFPAVVKADGLA-AGKGVIVAMDNEE---AIKAV 66
>gnl|CDD|233980 TIGR02712, urea_carbox, urea carboxylase. Members of this family
are ATP-dependent urea carboxylase, including
characterized members from Oleomonas sagaranensis (alpha
class Proteobacterium) and yeasts such as Saccharomyces
cerevisiae. The allophanate hydrolase domain of the
yeast enzyme is not included in this model and is
represented by an adjacent gene in Oleomonas
sagaranensis. The fusion of urea carboxylase and
allophanate hydrolase is designated urea amidolyase. The
enzyme from Oleomonas sagaranensis was shown to be
highly active on acetamide and formamide as well as urea
[Central intermediary metabolism, Nitrogen metabolism].
Length = 1201
Score = 30.4 bits (69), Expect = 2.6
Identities = 22/63 (34%), Positives = 31/63 (49%), Gaps = 7/63 (11%)
Query: 5 DLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSAITA---LGG--F-DRGLY 58
L+ A A K+ GYP+M+KS G G S EL+ A LG F D G++
Sbjct: 138 SLDEALEAAKEIGYPVMLKSTA-GGGGIGMQKCDSAAELAEAFETVKRLGESFFGDAGVF 196
Query: 59 VEK 61
+E+
Sbjct: 197 LER 199
>gnl|CDD|180865 PRK07178, PRK07178, pyruvate carboxylase subunit A; Validated.
Length = 472
Score = 30.1 bits (68), Expect = 2.6
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 3 VNDLESAWRAGKQFGYPLMVKSKRLAYDGRGNAVAKSEEELSSA 46
+ DL+ A ++ GYP+M+K+ GRG S EEL
Sbjct: 137 LADLDEALAEAERIGYPVMLKATS-GGGGRGIRRCNSREELEQN 179
>gnl|CDD|224734 COG1821, COG1821, Predicted ATP-utilizing enzyme (ATP-grasp
superfamily) [General function prediction only].
Length = 307
Score = 29.4 bits (66), Expect = 3.7
Identities = 12/51 (23%), Positives = 23/51 (45%), Gaps = 3/51 (5%)
Query: 102 PAAVPWKISELATDVAHKAVSSLEGA-GIFAVELFWTNNGQILLNEVAPRP 151
+ ++ A + A +AV + G G V+L + + + E+ PRP
Sbjct: 208 RTPIDHELKREAFEEAIRAVECIPGLNGYVGVDLVL--SDEPYVIEINPRP 256
>gnl|CDD|144876 pfam01442, Apolipoprotein, Apolipoprotein A1/A4/E domain. These
proteins contain several 22 residue repeats which form a
pair of alpha helices. This family includes:
Apolipoprotein A-I. Apolipoprotein A-IV. Apolipoprotein
E.
Length = 191
Score = 28.7 bits (65), Expect = 3.9
Identities = 7/26 (26%), Positives = 15/26 (57%)
Query: 404 DLRARMQQYMEDMRDDVLTKAEKLQK 429
LR +Q+ +ED+R + ++L+
Sbjct: 38 ALREELQKDLEDVRARLQPYLDELKA 63
Score = 28.0 bits (63), Expect = 7.8
Identities = 8/25 (32%), Positives = 15/25 (60%)
Query: 404 DLRARMQQYMEDMRDDVLTKAEKLQ 428
+LR ++ Y E++RD + E L+
Sbjct: 93 ELRRKLAPYAEELRDRLRQNVEALR 117
Score = 27.6 bits (62), Expect = 9.1
Identities = 9/26 (34%), Positives = 17/26 (65%)
Query: 404 DLRARMQQYMEDMRDDVLTKAEKLQK 429
+LR R+ Y E++R + AE+L++
Sbjct: 71 ELRQRLAPYAEELRKRLNRDAEELRR 96
>gnl|CDD|171499 PRK12438, PRK12438, hypothetical protein; Provisional.
Length = 991
Score = 29.4 bits (66), Expect = 4.7
Identities = 31/107 (28%), Positives = 42/107 (39%), Gaps = 6/107 (5%)
Query: 299 PHEVRIVSAHRTPD----LMFSYASSAHERGIEIIIAGAGGAAHLPGMVAARTPLPVIGV 354
P R++ + R P + YA + E ++ G G A PG AA P P G
Sbjct: 861 PQLSRVLVSVREPRTEGGVRVGYAPTLAEALDQVFGPGTGRVATAPGGDAASAPPPGAGP 920
Query: 355 PVRASALDGLDSLLSIVQMPRG--VPVATVAINNATNAGLLAVRMLG 399
P A+ + PRG VP A VA T A L + + G
Sbjct: 921 PAPPQAVPPPRTTQPPAAPPRGPDVPPAAVAELRETLADLRSAQRSG 967
>gnl|CDD|198454 cd10486, EphR_LBD_A8, Ligand Binding Domain of Ephrin type-A
Receptor 8. Ephrin receptors (EphRs) comprise the
largest subfamily of receptor tyrosine kinases (RTKs).
Class EphA receptors bind GPI-anchored ephrin-A ligands.
There are ten vertebrate EphA receptors (EphA1-10),
which display promiscuous interactions with six ephrin-A
ligands. EphA8 has been implicated in various cancers.
EphRs contain a ligand binding domain and two
fibronectin repeats extracellularly, a transmembrane
segment, and a cytoplasmic tyrosine kinase domain.
Binding of the ephrin ligand to EphR requires cell-cell
contact since both are anchored to the plasma membrane.
The resulting downstream signals occur bidirectionally
in both EphR-expressing cells (forward signaling) and
ephrin-expressing cells (reverse signaling).
Length = 173
Score = 28.1 bits (62), Expect = 6.0
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 200 GERGFYLAHQLIGKALSIPGATVHW 224
+RGFYLA Q IG ++I V++
Sbjct: 147 SKRGFYLAFQDIGACIAIVSVRVYY 171
>gnl|CDD|236045 PRK07534, PRK07534, methionine synthase I; Validated.
Length = 336
Score = 28.6 bits (64), Expect = 7.0
Identities = 17/40 (42%), Positives = 19/40 (47%), Gaps = 3/40 (7%)
Query: 308 HRTPDLMFSYASSAHERGIEIIIAGAGGA--AHLPGMVAA 345
TP+LM YA A + G II G G HL M AA
Sbjct: 254 DGTPELMAEYAVLARDAGAR-IIGGCCGTMPEHLAAMRAA 292
>gnl|CDD|224997 COG2086, FixA, Electron transfer flavoprotein, beta subunit [Energy
production and conversion].
Length = 260
Score = 28.4 bits (64), Expect = 7.2
Identities = 9/54 (16%), Positives = 21/54 (38%), Gaps = 6/54 (11%)
Query: 316 SYASSAHERGIE--IIIAG----AGGAAHLPGMVAARTPLPVIGVPVRASALDG 363
+ A +A + I +++ G G + ++A P + + +DG
Sbjct: 100 AKALAAAVKKIGPDLVLTGKQAIDGDTGQVGPLLAELLGWPQVTYVSKIEIVDG 153
>gnl|CDD|179673 PRK03910, PRK03910, D-cysteine desulfhydrase; Validated.
Length = 331
Score = 28.3 bits (64), Expect = 8.5
Identities = 24/90 (26%), Positives = 41/90 (45%), Gaps = 19/90 (21%)
Query: 328 IIIA-GAGG--AAHLPGMVAARTPLPVIGVPVRASALDGLDSLLSIVQ-------MPRGV 377
+++A G+GG A G+ A +PVIGV V SA + + + Q +P +
Sbjct: 187 VVVASGSGGTHAGLAAGLAALGPDIPVIGVTVSRSAAEQEPKVAKLAQATAELLGLPTEI 246
Query: 378 PVATVAINNA---------TNAGLLAVRML 398
P A + + + T+ L AV++L
Sbjct: 247 PRADIRLWDDYVGPGYGVPTDEMLEAVKLL 276
>gnl|CDD|215407 PLN02762, PLN02762, pyruvate kinase complex alpha subunit.
Length = 509
Score = 28.6 bits (64), Expect = 8.8
Identities = 16/43 (37%), Positives = 23/43 (53%)
Query: 338 HLPGMVAARTPLPVIGVPVRASALDGLDSLLSIVQMPRGVPVA 380
HL +AAR+ IGV + +LD L +L I++ G VA
Sbjct: 233 HLKSYIAARSRDSDIGVIAKIESLDSLKNLEEIIRASDGAMVA 275
>gnl|CDD|226611 COG4126, COG4126, Hydantoin racemase [Amino acid transport and
metabolism].
Length = 230
Score = 27.7 bits (62), Expect = 9.6
Identities = 14/43 (32%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 317 YASSAHERGIEIIIAGAGGAAHLPGMVAARTPLPVIGVPVRAS 359
A + E G E II G G + L + +PVI V A+
Sbjct: 166 AAEALKEDGAEAIILGCAGMSDLADQLQKAFGVPVID-GVAAA 207
>gnl|CDD|233117 TIGR00759, aceE, pyruvate dehydrogenase E1 component, homodimeric
type. Most members of this family are pyruvate
dehydrogenase complex, E1 component. Note: this family
was classified as subfamily rather than equivalog
because it includes a counterexample from Pseudomonas
putida, MdeB, that is active as an E1 component of an
alpha-ketoglutarate dehydrogenase complex rather than a
pyruvate dehydrogase complex. The second pyruvate
dehydrogenase complex E1 protein from Alcaligenes
eutrophus, PdhE, complements an aceE mutant of E. coli
but is not part of a pyruvate dehydrogenase complex
operon, is more similar to the Pseudomonas putida MdeB
than to E. coli AceE, and may have also have a different
primary specificity.
Length = 885
Score = 28.2 bits (63), Expect = 9.7
Identities = 12/34 (35%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 399 GFGDADLRARMQQYME-DMRDDVLTKAEKLQKDG 431
GFG +D R ++ + E D + VL L DG
Sbjct: 826 GFGRSDTRENLRHFFEVDAKSVVLAALYALADDG 859
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
0.319 0.134 0.397
Gapped
Lambda K H
0.267 0.0817 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 22,496,018
Number of extensions: 2232692
Number of successful extensions: 2280
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2233
Number of HSP's successfully gapped: 85
Length of query: 438
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 338
Effective length of database: 6,502,202
Effective search space: 2197744276
Effective search space used: 2197744276
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: 60 (26.7 bits)