RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 009955
(521 letters)
>gnl|CDD|178479 PLN02891, PLN02891, IMP cyclohydrolase.
Length = 547
Score = 919 bits (2376), Expect = 0.0
Identities = 388/466 (83%), Positives = 413/466 (88%), Gaps = 3/466 (0%)
Query: 53 MAHSHTVSVPTNQPQSSSSSQANKQALISLSDKKDLASLGIGLQELGYTIVSTGGTATSL 112
MA S T + QPQSS SS KQALISLSDK DLA L GLQELGYTIVSTGGTA++L
Sbjct: 1 MAASATAARAPAQPQSSPSS-GKKQALISLSDKTDLALLANGLQELGYTIVSTGGTASAL 59
Query: 113 ENAGVSVTKVEQLTCFPEMLDGRVKTLHPNIHGGILARRDQKHHMDALSEHGIGTFDLVV 172
E AGVSVTKVE+LT FPEMLDGRVKTLHP +HGGILARRDQ+HHM+AL+EHGIGT D+VV
Sbjct: 60 EAAGVSVTKVEELTNFPEMLDGRVKTLHPAVHGGILARRDQEHHMEALNEHGIGTIDVVV 119
Query: 173 VNLYPFYDKVTSAGGIDFEDGIENIDIGGPAMIRAAAKNHKDVLVVVGSEDYPALLEFLK 232
VNLYPFYD VTS GGI FEDG+ENIDIGGPAMIRAAAKNHKDVLVVV DYPALLE+LK
Sbjct: 120 VNLYPFYDTVTS-GGISFEDGVENIDIGGPAMIRAAAKNHKDVLVVVDPADYPALLEYLK 178
Query: 233 GNQDDQQ-FRRKLAWKAFQHVASYDSAVSEWLWKQIAEEDKFPPSFTVPLELKSSLRYGE 291
G QDDQQ FRRKLAWKAFQHVASYDSAVSEWLWKQI KFPPS TVPL LKSSLRYGE
Sbjct: 179 GKQDDQQDFRRKLAWKAFQHVASYDSAVSEWLWKQINGGGKFPPSLTVPLTLKSSLRYGE 238
Query: 292 NPHQKAAFYVDKSLAEVNAGGIATAIQHHGKEMSYNNYLDADAAWNCVSEFKNPTCVIVK 351
NPHQKAAFYVDKSL+EVNAGGIATAIQHHGKEMSYNNYLDADAAWNCVSEF NPTCV+VK
Sbjct: 239 NPHQKAAFYVDKSLSEVNAGGIATAIQHHGKEMSYNNYLDADAAWNCVSEFSNPTCVVVK 298
Query: 352 HTNPCGVASRDDILEAYKLAVKADPVSAFGGIVAFNVEVDEALAKELREYRSPTDGETRM 411
HTNPCGVASR DILEAY+LAV+ADPVSAFGGIVAFN EVDE LA+E+RE+RSPTDGETRM
Sbjct: 299 HTNPCGVASRGDILEAYRLAVRADPVSAFGGIVAFNCEVDEDLAREIREFRSPTDGETRM 358
Query: 412 FYEIVVAPSYTEEGLEILRGKSKNLRILETKKNKKGKLSLRQVGGGWLAQDSDDLTPEDI 471
FYEIVVAP YTE+GLE+L+GKSK LRILE K KKG+LSLRQVGGGWLAQDSDDLTPEDI
Sbjct: 359 FYEIVVAPKYTEKGLEVLKGKSKTLRILEAKPRKKGRLSLRQVGGGWLAQDSDDLTPEDI 418
Query: 472 QFKVVSEKKPQESELHDAEFAWLCVKHVKSNAIVIAKVGTSILMKS 517
F VVSEK P ESEL DA+FAWLCVKHVKSNAIV+AK + M S
Sbjct: 419 TFTVVSEKVPTESELEDAKFAWLCVKHVKSNAIVVAKNNRMLGMGS 464
>gnl|CDD|234854 PRK00881, purH, bifunctional
phosphoribosylaminoimidazolecarboxamide
formyltransferase/IMP cyclohydrolase; Provisional.
Length = 513
Score = 669 bits (1730), Expect = 0.0
Identities = 239/439 (54%), Positives = 286/439 (65%), Gaps = 19/439 (4%)
Query: 76 KQALISLSDKKDLASLGIGLQELGYTIVSTGGTATSLENAGVSVTKVEQLTCFPEMLDGR 135
K+ALIS+SDK + L ELG I+STGGTA L AG+ VT+V +T FPE+LDGR
Sbjct: 5 KRALISVSDKTGIVEFAKALVELGVEILSTGGTAKLLAEAGIPVTEVSDVTGFPEILDGR 64
Query: 136 VKTLHPNIHGGILARRDQKHHMDALSEHGIGTFDLVVVNLYPFYDKVTSAGGIDFEDGIE 195
VKTLHP IHGGILARRD H+ AL EHGI DLVVVNLYPF + V G E+ IE
Sbjct: 65 VKTLHPKIHGGILARRDNPEHVAALEEHGIEPIDLVVVNLYPFEETVAKPGV-TLEEAIE 123
Query: 196 NIDIGGPAMIRAAAKNHKDVLVVVGSEDYPALLEFLK-GNQDDQQFRRKLAWKAFQHVAS 254
NIDIGGP M+RAAAKNHKDV VVV DY A+LE LK + R +LA KAF H A+
Sbjct: 124 NIDIGGPTMVRAAAKNHKDVAVVVDPADYDAVLEELKANGSTTLETRFRLAAKAFAHTAA 183
Query: 255 YDSAVSEWLWKQIAEEDKFPPSFTVPLELKSSLRYGENPHQKAAFYVDKSLAEVNAGGIA 314
YD+A++ +L +Q+ EE FP + + E K LRYGENPHQKAAFY D + GG+A
Sbjct: 184 YDAAIANYLTEQVGEE--FPETLNLSFEKKQDLRYGENPHQKAAFYRDPN----AEGGVA 237
Query: 315 TAIQHHGKEMSYNNYLDADAAWNCVSEFKNPTCVIVKHTNPCGVASRDDILEAYKLAVKA 374
TA Q GKE+SYNN DADAA V EF P CVIVKH NPCGVA D ILEAY A
Sbjct: 238 TAEQLQGKELSYNNIADADAALELVKEFDEPACVIVKHANPCGVAVGDTILEAYDKAYAC 297
Query: 375 DPVSAFGGIVAFNVEVDEALAKELREYRSPTDGETRMFYEIVVAPSYTEEGLEILRGKSK 434
DPVSAFGGI+AFN EVD A+ + ++F E+++APS++EE LEIL K K
Sbjct: 298 DPVSAFGGIIAFNREVDAETAEAI----------HKIFLEVIIAPSFSEEALEILAKK-K 346
Query: 435 NLRILETKKNKKGKLSLRQVGGGWLAQDSDDLTPEDIQFKVVSEKKPQESELHDAEFAWL 494
NLR+LE + + V GG L QD D + KVV++++P E EL D FAW
Sbjct: 347 NLRLLECPFPGGWEGDFKSVSGGLLVQDRDLGMVDPADLKVVTKRQPTEQELKDLLFAWK 406
Query: 495 CVKHVKSNAIVIAKVGTSI 513
VKHVKSNAIV AK G ++
Sbjct: 407 VVKHVKSNAIVYAKDGQTV 425
>gnl|CDD|223216 COG0138, PurH, AICAR transformylase/IMP cyclohydrolase PurH (only
IMP cyclohydrolase domain in Aful) [Nucleotide transport
and metabolism].
Length = 515
Score = 579 bits (1496), Expect = 0.0
Identities = 235/443 (53%), Positives = 286/443 (64%), Gaps = 23/443 (5%)
Query: 76 KQALISLSDKKDLASLGIGLQELGYTIVSTGGTATSLENAGVSVTKVEQLTCFPEMLDGR 135
K+AL+S+SDK + L ELG I+STGGTA L AG+ VT+V +T FPEMLDGR
Sbjct: 3 KRALLSVSDKTGIVEFAKALVELGVEILSTGGTAKLLAEAGIPVTEVSDITGFPEMLDGR 62
Query: 136 VKTLHPNIHGGILARRDQKHHMDALSEHGIGTFDLVVVNLYPFYDKVTSAGGIDFEDGIE 195
VKTLHP IHGGILARRD+ HM AL EHGI DLVVVNLYPF + V G E+ +E
Sbjct: 63 VKTLHPKIHGGILARRDKDEHMAALEEHGIEPIDLVVVNLYPFEETVAKPGV-TLEEAVE 121
Query: 196 NIDIGGPAMIRAAAKNHKDVLVVVGSEDYPALLEFLK-GNQDDQQFRRKLAWKAFQHVAS 254
NIDIGGP M+RAAAKNHKDV VVV DY A+LE LK + R++LA KAF+H A+
Sbjct: 122 NIDIGGPTMLRAAAKNHKDVTVVVDPADYAAVLEELKANGELSLATRKRLAAKAFEHTAA 181
Query: 255 YDSAVSEWLWKQIAEEDKFPPSFTVPLELKSSLRYGENPHQKAAFYVDKSLAEVNAGGIA 314
YD+A++ + + + E FP + K LRYGENPHQ AAFY D + GG+A
Sbjct: 182 YDAAIANYFSELLGGE--FPEQLNLSFTKKQDLRYGENPHQSAAFYRDGN----AKGGVA 235
Query: 315 TAIQHHGKEMSYNNYLDADAAWNCVSEFKN--PTCVIVKHTNPCGVASRDDILEAYKLAV 372
TA Q GKE+SYNN DADAAW V EF P C IVKH NPCGVA D I EAYK A
Sbjct: 236 TAKQLQGKELSYNNIADADAAWELVKEFDEPGPACAIVKHANPCGVAVGDTIAEAYKRAY 295
Query: 373 KADPVSAFGGIVAFNVEVDEALAKELREYRSPTDGETRMFYEIVVAPSYTEEGLEILRGK 432
+ADP SAFGGI+A N EVD A+ + + +F E+++APSYTEE LEIL K
Sbjct: 296 EADPTSAFGGIIALNREVDVETAEAISK----------IFLEVIIAPSYTEEALEILAKK 345
Query: 433 SKNLRILETKKNKKG--KLSLRQVGGGWLAQDSDDLTPEDIQFKVVSEKKPQESELHDAE 490
KNLR+L L ++V GG L Q+ DD ++ + KVV++++P E EL D
Sbjct: 346 -KNLRVLTIGPLGPRAAGLEFKRVSGGLLVQERDDGMIDEAELKVVTKRQPTEQELEDLL 404
Query: 491 FAWLCVKHVKSNAIVIAKVGTSI 513
FAW VKHVKSNAIV AK G ++
Sbjct: 405 FAWKVVKHVKSNAIVYAKDGQTV 427
>gnl|CDD|232936 TIGR00355, purH, phosphoribosylaminoimidazolecarboxamide
formyltransferase/IMP cyclohydrolase. PurH is
bifunctional: IMP cyclohydrolase (EC 3.5.4.10);
phosphoribosylaminoimidazolecarboxamide
formyltransferase (EC 2.1.2.3) Involved in purine
ribonucleotide biosynthesis. The IMP cyclohydrolase
activity is in the N-terminal region [Purines,
pyrimidines, nucleosides, and nucleotides, Purine
ribonucleotide biosynthesis].
Length = 511
Score = 463 bits (1193), Expect = e-159
Identities = 220/441 (49%), Positives = 276/441 (62%), Gaps = 21/441 (4%)
Query: 76 KQALISLSDKKDLASLGIGLQELGYTIVSTGGTATSLENAGVSVTKVEQLTCFPEMLDGR 135
++AL+S+SDK + GL E G ++STGGTA L AGV VT+V T FPEM+DGR
Sbjct: 1 RRALLSVSDKTGIVEFAQGLVERGVELLSTGGTAKLLAEAGVPVTEVSDYTGFPEMMDGR 60
Query: 136 VKTLHPNIHGGILARRDQKHHMDALSEHGIGTFDLVVVNLYPFYDKVTSAGGIDFEDGIE 195
VKTLHP +HGGILARR D L EHGI DLVVVNLYPF + V + G+ + +E
Sbjct: 61 VKTLHPKVHGGILARRGDDDDAD-LEEHGIEPIDLVVVNLYPFKETV-AKPGVTLAEAVE 118
Query: 196 NIDIGGPAMIRAAAKNHKDVLVVVGSEDYPALLEFLKGNQD-DQQFRRKLAWKAFQHVAS 254
NIDIGGP M+RAAAKNH DV ++V +DY A+L L R LA KAF+H A+
Sbjct: 119 NIDIGGPTMLRAAAKNHADVTILVDPKDYSAILSELDEQGSISLALRFDLAIKAFEHTAA 178
Query: 255 YDSAVSEWLWKQIAEEDKFPPSFTVPLELKSSLRYGENPHQKAAFYVDKSLAEVNAGGIA 314
YD+A++ + K + E++ P F + K +LRYGENPHQKAAFYV +++ E G +A
Sbjct: 179 YDAAIANYFGKLVGEKE--PRQFNLNFTKKQTLRYGENPHQKAAFYVTQNVKE---GSVA 233
Query: 315 TAIQHHGKEMSYNNYLDADAAWNCVSEFKNPTCVIVKHTNPCGVASRDDILEAYKLAVKA 374
TA Q GKE+SYNN DADAA V EF P VIVKH NPCGVA IL+AY A A
Sbjct: 234 TAEQLQGKELSYNNIADADAALEIVKEFDEPAAVIVKHANPCGVALGKTILDAYDRAFGA 293
Query: 375 DPVSAFGGIVAFNVEVDEALAKELREYRSPTDGETRMFYEIVVAPSYTEEGLEILRGKSK 434
DP SAFGGI+A N E+D AK + R F E+++AP Y+ E LEIL K K
Sbjct: 294 DPTSAFGGIIALNRELDVPTAKAI----------VRQFLEVIIAPGYSAEALEILAKK-K 342
Query: 435 NLRILETKK--NKKGKLSLRQVGGGWLAQDSDDLTPEDIQFKVVSEKKPQESELHDAEFA 492
NLR+L N+ +L ++V GG L QD DD + KVV++++P E EL D FA
Sbjct: 343 NLRVLILGIWANRVPELDFKRVNGGLLVQDRDDGMVDQSTLKVVTKRQPTEQELIDLLFA 402
Query: 493 WLCVKHVKSNAIVIAKVGTSI 513
W KHVKSNAIV AK ++
Sbjct: 403 WKVAKHVKSNAIVYAKNNMTV 423
>gnl|CDD|214822 smart00798, AICARFT_IMPCHas, AICARFT/IMPCHase bienzyme. This is a
family of bifunctional enzymes catalysing the last two
steps in de novo purine biosynthesis. The bifunctional
enzyme is found in both prokaryotes and eukaryotes. The
second last step is catalysed by
5-aminoimidazole-4-carboxamide ribonucleotide
formyltransferase (AICARFT), this enzyme catalyses the
formylation of AICAR with 10-formyl-tetrahydrofolate to
yield FAICAR and tetrahydrofolate. The last step is
catalysed by IMP (Inosine monophosphate) cyclohydrolase
(IMPCHase), cyclizing FAICAR
(5-formylaminoimidazole-4-carboxamide ribonucleotide) to
IMP.
Length = 311
Score = 428 bits (1103), Expect = e-149
Identities = 159/308 (51%), Positives = 192/308 (62%), Gaps = 19/308 (6%)
Query: 208 AAKNHKDVLVVVGSEDYPALLEFLK-GNQDDQQFRRKLAWKAFQHVASYDSAVSEWLWKQ 266
AAKNHKDV VVV DY +LE LK + R++LA KAF H A+YD+A+S +L KQ
Sbjct: 1 AAKNHKDVTVVVDPADYAEVLEELKANGGLSLETRKRLAAKAFAHTAAYDAAISNYLAKQ 60
Query: 267 IAEEDKFPPSFTVPLELKSSLRYGENPHQKAAFYVDKSLAEVNAGGIATAIQHHGKEMSY 326
+FP + T+ E K LRYGENPHQKAAFY D GGIATA Q GKE+SY
Sbjct: 61 --LASEFPETLTLSFEKKQDLRYGENPHQKAAFYTDPD----ALGGIATAKQLQGKELSY 114
Query: 327 NNYLDADAAWNCVSEFKNPTCVIVKHTNPCGVASRDDILEAYKLAVKADPVSAFGGIVAF 386
NN LDADAA V EF P CVIVKH NPCGVA D + EAY+ A ADPVSAFGGI+AF
Sbjct: 115 NNILDADAALELVKEFDEPACVIVKHANPCGVAVGDTLAEAYRKAYAADPVSAFGGIIAF 174
Query: 387 NVEVDEALAKELREYRSPTDGETRMFYEIVVAPSYTEEGLEILRGKSKNLRILETKKN-K 445
N VDE A+ + ++F E+++AP + EE LEIL K KNLR+LE
Sbjct: 175 NRPVDEETAEAI----------NKIFLEVIIAPDFDEEALEILSKK-KNLRLLECGPLPD 223
Query: 446 KGKLSLRQVGGGWLAQDSDDLTPEDIQFKVVSEKKPQESELHDAEFAWLCVKHVKSNAIV 505
L + V GG L QD D+ + KVV++++P E EL D FAW VKHVKSNAIV
Sbjct: 224 PDGLEFKSVSGGLLVQDRDNGGIDPEDLKVVTKRQPTEEELADLLFAWKVVKHVKSNAIV 283
Query: 506 IAKVGTSI 513
AK G ++
Sbjct: 284 YAKDGQTV 291
>gnl|CDD|216715 pfam01808, AICARFT_IMPCHas, AICARFT/IMPCHase bienzyme. This is a
family of bifunctional enzymes catalyzing the last two
steps in de novo purine biosynthesis. The bifunctional
enzyme is found in both prokaryotes and eukaryotes. The
second last step is catalyzed by
5-aminoimidazole-4-carboxamide ribonucleotide
formyltransferase EC:2.1.2.3 (AICARFT), this enzyme
catalyzes the formylation of AICAR with
10-formyl-tetrahydrofolate to yield FAICAR and
tetrahydrofolate. This is catalyzed by a pair of
C-terminal deaminase fold domains in the protein, where
the active site is formed by the dimeric interface of
two monomeric units. The last step is catalyzed by the
N-terminal IMP (Inosine monophosphate) cyclohydrolase
domain EC:3.5.4.10 (IMPCHase), cyclizing FAICAR
(5-formylaminoimidazole-4-carboxamide ribonucleotide) to
IMP.
Length = 315
Score = 416 bits (1071), Expect = e-144
Identities = 161/310 (51%), Positives = 199/310 (64%), Gaps = 19/310 (6%)
Query: 208 AAKNHKDVLVVVGSEDYPALLEFLKGN-QDDQQFRRKLAWKAFQHVASYDSAVSEWLWKQ 266
AAKNHK V +VV DY A+L LK Q RR+LA KAF+H A+YD+A++++ KQ
Sbjct: 1 AAKNHKRVTIVVDPADYSAVLAELKKEGSLTLQTRRRLALKAFEHTAAYDAAIADYFRKQ 60
Query: 267 IAEEDKFPPSFTVPLELKSSLRYGENPHQKAAFYVDKSLAEVNAGGIATAIQHHGKEMSY 326
+ + +FT+P K SLRYGENPHQ+AAFYVD + E G IA A Q HGKEMSY
Sbjct: 61 YSPKHPER-TFTLPGVRKQSLRYGENPHQQAAFYVDPTQKE---GSIAPAEQLHGKEMSY 116
Query: 327 NNYLDADAAWNCVSEFKNPT-CVIVKHTNPCGVASRDDILEAYKLAVKADPVSAFGGIVA 385
NN LDADAAW V EF+N IVKH NPCGVA I EAY A +ADP+SAFGGI+A
Sbjct: 117 NNLLDADAAWRLVKEFENQPAAAIVKHANPCGVAVGPSIAEAYARAREADPMSAFGGIIA 176
Query: 386 FNVEVDEALAKELREYRSPTDGETRMFYEIVVAPSYTEEGLEILRGKSKNLRILETKKNK 445
N EVD AKE+ + F E+++AP Y E LE+L K KNLR+L +++
Sbjct: 177 LNDEVDVETAKEI----------SEEFSEVIIAPGYEPEALEVLSRK-KNLRVLVLQEDP 225
Query: 446 KG--KLSLRQVGGGWLAQDSDDLTPEDIQFKVVSEKKPQESELHDAEFAWLCVKHVKSNA 503
+L LRQV GG L QD DD +D +F VV+++KP E EL D FAW VKHVKSNA
Sbjct: 226 AYVPELELRQVSGGLLIQDRDDGGVDDSEFSVVTKRKPTEQELEDLLFAWKVVKHVKSNA 285
Query: 504 IVIAKVGTSI 513
IV AK G ++
Sbjct: 286 IVYAKNGMTV 295
>gnl|CDD|238709 cd01421, IMPCH, Inosine monophosphate cyclohydrolase domain. This
is the N-terminal domain in the purine biosynthesis
pathway protein ATIC (purH). The bifunctional ATIC
protein contains a C-terminal ATIC formylase domain
that formylates
5-aminoimidazole-4-carboxamide-ribonucleotide. The IMPCH
domain then converts the
formyl-5-aminoimidazole-4-carboxamide-ribonucleotide to
inosine monophosphate. This is the final step in de novo
purine production.
Length = 187
Score = 288 bits (739), Expect = 7e-96
Identities = 110/189 (58%), Positives = 134/189 (70%), Gaps = 3/189 (1%)
Query: 76 KQALISLSDKKDLASLGIGLQELGYTIVSTGGTATSLENAGVSVTKVEQLTCFPEMLDGR 135
K+ALIS+SDK L L ELG I+STGGTA L+ AG+ VT V +T FPE+L GR
Sbjct: 1 KRALISVSDKTGLVEFAKELVELGVEILSTGGTAKFLKEAGIPVTDVSDITGFPEILGGR 60
Query: 136 VKTLHPNIHGGILARRDQKHHMDALSEHGIGTFDLVVVNLYPFYDKVTSAGGIDFEDGIE 195
VKTLHP IHGGILARRD + H D L EHGI DLVVVNLYPF + V + G + E+ IE
Sbjct: 61 VKTLHPKIHGGILARRDNEEHKD-LEEHGIEPIDLVVVNLYPFEETV-AKGNVTLEEAIE 118
Query: 196 NIDIGGPAMIRAAAKNHKDVLVVVGSEDYPALLEFLKGNQD-DQQFRRKLAWKAFQHVAS 254
NIDIGGP+++RAAAKN+KDV V+V DY +LE LK N ++ RR+LA KAF H A
Sbjct: 119 NIDIGGPSLLRAAAKNYKDVTVLVDPADYQKVLEELKSNGSISEETRRRLALKAFAHTAE 178
Query: 255 YDSAVSEWL 263
YD+A+S +L
Sbjct: 179 YDAAISNYL 187
>gnl|CDD|214855 smart00851, MGS, MGS-like domain. This domain composes the whole
protein of methylglyoxal synthetase and the domain is
also found in Carbamoyl phosphate synthetase (CPS) where
it forms a regulatory domain that binds to the
allosteric effector ornithine. This family also includes
inosicase. The known structures in this family show a
common phosphate binding site.
Length = 91
Score = 89.5 bits (223), Expect = 8e-22
Identities = 41/117 (35%), Positives = 49/117 (41%), Gaps = 26/117 (22%)
Query: 87 DLASLGIGLQELGYTIVSTGGTATSLENAGVSVTKVEQLTCFPEMLDGRVKTLHPNIHGG 146
L L ELG+ +++TGGTA L AG+ V VKTLHP +HGG
Sbjct: 1 GLVEFAKRLAELGFELLATGGTAKFLREAGLPV----------------VKTLHPKVHGG 44
Query: 147 ILARRDQKHHMDALSEHGIGTFDLVVVNLYPFYDKVTSAGGIDFEDGIENIDIGGPA 203
I L G DLV+ LYPF + G ENIDI GP
Sbjct: 45 I---------PQILDLIKNGEIDLVINTLYPF-EAQAHEDGYSIRRAAENIDIPGPT 91
>gnl|CDD|216899 pfam02142, MGS, MGS-like domain. This domain composes the whole
protein of methylglyoxal synthetase and the domain is
also found in Carbamoyl phosphate synthetase (CPS) where
it forms a regulatory domain that binds to the
allosteric effector ornithine. This family also includes
inosicase. The known structures in this family show a
common phosphate binding site.
Length = 92
Score = 81.4 bits (202), Expect = 6e-19
Identities = 36/117 (30%), Positives = 43/117 (36%), Gaps = 25/117 (21%)
Query: 87 DLASLGIGLQELGYTIVSTGGTATSLENAGVSVTKVEQLTCFPEMLDGRVKTLHPNIHGG 146
L L L ELG+ + +TGGTA L+ AG+ V T GRV
Sbjct: 1 GLVELAKALVELGFKLYATGGTAKFLKEAGIPTEVVN-KTGEG-RPGGRV---------- 48
Query: 147 ILARRDQKHHMDALSEHGIGTFDLVVVNLYPFYDKVTSAGGIDFEDGIENIDIGGPA 203
D + I DLV+ LYPF V G ENIDI P
Sbjct: 49 --------QIGDLIKNGEI---DLVINTLYPFKATV--HDGYAIRRAAENIDIPLPT 92
>gnl|CDD|180841 PRK07106, PRK07106, 5-aminoimidazole-4-carboxamide ribonucleotide
transformylase; Provisional.
Length = 390
Score = 84.7 bits (210), Expect = 1e-17
Identities = 75/256 (29%), Positives = 109/256 (42%), Gaps = 50/256 (19%)
Query: 287 LRYGENPHQKAA--FYVDKSLA-EVNAGGIATAIQHHGKEMSYNNYLDADAAWNCVSEFK 343
L+YG NP+QK A F + L EV G Y N+LDA +W V E K
Sbjct: 6 LKYGCNPNQKPARIFMKEGELPIEVLNG-----------RPGYINFLDALNSWQLVKELK 54
Query: 344 N----PTCVIVKHTNPCGVA---SRDDILE---------------AYKLAVKADPVSAFG 381
P KH +P G A D L+ AY A AD +S++G
Sbjct: 55 EATGLPAAASFKHVSPAGAAVGLPLSDTLKKIYFVDDMELSPLACAYARARGADRMSSYG 114
Query: 382 GIVAFNVEVDEALAKELREYRSPTDGETRMFYEIVVAPSYTEEGLEILRGKSK-NLRILE 440
A + D AK L+ R +DG ++AP YT E LEIL+ K K N I++
Sbjct: 115 DFAALSDVCDVETAKLLK--REVSDG--------IIAPGYTPEALEILKAKKKGNYNIIK 164
Query: 441 TKKN-KKGKLSLRQVGGGWLAQDSDDLTPEDIQFK--VVSEKKPQESELHDAEFAWLCVK 497
N + + + V G Q ++L ++ K V K+ + D A + +K
Sbjct: 165 IDPNYEPAPIETKDVFGITFEQGRNELKIDEDLLKNIVTENKELPDEAKRDLIIALITLK 224
Query: 498 HVKSNAIVIAKVGTSI 513
+ +SN++ AK G +I
Sbjct: 225 YTQSNSVCYAKDGQAI 240
>gnl|CDD|238297 cd00532, MGS-like, MGS-like domain. This domain composes the whole
protein of methylglyoxal synthetase, which catalyzes the
enolization of dihydroxyacetone phosphate (DHAP) to
produce methylglyoxal. The family also includes the
C-terminal domain in carbamoyl phosphate synthetase
(CPS) where it catalyzes the last phosphorylation of a
coaboxyphosphate intermediate to form the product
carbamoyl phosphate and may also play a regulatory role.
This family also includes inosine monophosphate
cyclohydrolase. The known structures in this family show
a common phosphate binding site.
Length = 112
Score = 49.4 bits (118), Expect = 1e-07
Identities = 31/149 (20%), Positives = 48/149 (32%), Gaps = 43/149 (28%)
Query: 78 ALISLSD--KKDLASLGIGLQELGYTIVSTGGTATSLENAGVSVTKVEQLTCFPEMLDGR 135
+S+SD K L L L G+ + +TGGT+ L +AG+ V V +
Sbjct: 2 VFLSVSDHVKAMLVDLAPKLSSDGFPLFATGGTSRVLADAGIPVRAVSKRHED------- 54
Query: 136 VKTLHPNIHGGILARRDQKHHMDALSEHGIGTFDLVVVNLYPFYDKVTSAGGIDFEDGIE 195
P + I + G FD+V+ P D
Sbjct: 55 ---GEPTVDAAIAEK---------------GKFDVVINLRDPRRD--------------R 82
Query: 196 NIDIGGPAMIRAAAKNHKDVLVVVGSEDY 224
D G A++R A + V +
Sbjct: 83 CTDEDGTALLRLARLYK--IPVTTPNATA 109
>gnl|CDD|238712 cd01424, MGS_CPS_II, Methylglyoxal synthase-like domain from type
II glutamine-dependent carbamoyl phosphate synthetase
(CSP). CSP, a CarA and CarB heterodimer, catalyzes the
production of carbamoyl phosphate which is subsequently
employed in the metabolic pathways responsible for the
synthesis of pyrimidine nucleotides or arginine. The
MGS-like domain is the C-terminal domain of CarB and
appears to play a regulatory role in CPS function by
binding allosteric effector molecules, including UMP and
ornithine.
Length = 110
Score = 49.0 bits (118), Expect = 2e-07
Identities = 18/47 (38%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 78 ALISL--SDKKDLASLGIGLQELGYTIVSTGGTATSLENAGVSVTKV 122
IS+ DK + + L ELG+ +V+T GTA L+ AG+ V V
Sbjct: 3 VFISVADRDKPEAVEIAKRLAELGFKLVATEGTAKYLQEAGIPVEVV 49
>gnl|CDD|215391 PLN02735, PLN02735, carbamoyl-phosphate synthase.
Length = 1102
Score = 52.5 bits (126), Expect = 4e-07
Identities = 24/50 (48%), Positives = 30/50 (60%), Gaps = 2/50 (4%)
Query: 78 ALISLSD--KKDLASLGIGLQELGYTIVSTGGTATSLENAGVSVTKVEQL 125
ISL+D K L + G ELG+ IVST GTA LE AG+ V +V +L
Sbjct: 975 VFISLNDLTKPHLVPIARGFLELGFRIVSTSGTAHFLELAGIPVERVLKL 1024
>gnl|CDD|235393 PRK05294, carB, carbamoyl phosphate synthase large subunit;
Reviewed.
Length = 1066
Score = 45.9 bits (110), Expect = 5e-05
Identities = 18/47 (38%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 78 ALISL--SDKKDLASLGIGLQELGYTIVSTGGTATSLENAGVSVTKV 122
+S+ DK+++ L L ELG+ I++T GTA L AG+ V V
Sbjct: 940 VFLSVRDRDKEEVVELAKRLLELGFKILATSGTAKFLREAGIPVELV 986
>gnl|CDD|237215 PRK12815, carB, carbamoyl phosphate synthase large subunit; Reviewed.
Length = 1068
Score = 37.3 bits (87), Expect = 0.025
Identities = 25/86 (29%), Positives = 38/86 (44%), Gaps = 5/86 (5%)
Query: 83 SDKKDLASLGIGLQELGYTIVSTGGTATSLENAGVSVTKVEQLTCFPEMLDGRVK----T 138
DK ++ L +LG+ +++T GTA L G++ VE++ L R+K
Sbjct: 947 EDKPEVTKLARRFAQLGFKLLATEGTANWLAEEGITTGVVEKVQEGSPSLLERIKQHRIV 1006
Query: 139 LHPNIHGGILARRDQ-KHHMDALSEH 163
L N A D K +ALS H
Sbjct: 1007 LVVNTSLSDSASEDAIKIRDEALSTH 1032
>gnl|CDD|238711 cd01423, MGS_CPS_I_III, Methylglyoxal synthase-like domain found in
pyr1 and URA1-like carbamoyl phosphate synthetases
(CPS), including ammonia-dependent CPS Type I, and
glutamine-dependent CPS Type III. These are multidomain
proteins, in which MGS is the C-terminal domain.
Length = 116
Score = 34.2 bits (79), Expect = 0.033
Identities = 17/51 (33%), Positives = 24/51 (47%)
Query: 80 ISLSDKKDLASLGIGLQELGYTIVSTGGTATSLENAGVSVTKVEQLTCFPE 130
I K +L L +LGY + +T GTA L G+ VT V + P+
Sbjct: 7 IGSYSKPELLPTAQKLSKLGYKLYATEGTADFLLENGIPVTPVAWPSEEPQ 57
>gnl|CDD|212908 cd11975, SH3_ARHGEF9, Src homology 3 domain of the Rho guanine
nucleotide exchange factor ARHGEF9. ARHGEF9, also
called PEM2 or collybistin, selectively activates Cdc42
by exchanging bound GDP for free GTP. It is highly
expressed in the brain and it interacts with gephyrin, a
postsynaptic protein associated with GABA and glycine
receptors. Mutations in the ARHGEF9 gene cause X-linked
mental retardation with associated features like
seizures, hyper-anxiety, aggressive behavior, and
sensory hyperarousal. ARHGEF9 contains a SH3 domain
followed by RhoGEF (also called Dbl-homologous or DH)
and Pleckstrin Homology (PH) domains. SH3 domains are
protein interaction domains that bind to proline-rich
ligands with moderate affinity and selectivity,
preferentially to PxxP motifs. They play versatile and
diverse roles in the cell including the regulation of
enzymes, changing the subcellular localization of
signaling pathway components, and mediating the
formation of multiprotein complex assemblies.
Length = 62
Score = 31.2 bits (70), Expect = 0.14
Identities = 15/37 (40%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 242 RKLAWKAFQHVASYDSAVSEWLWKQIAEEDK-FPPSF 277
R+LA+KA + D++ +W W QI +E+ FP SF
Sbjct: 19 RELAFKAGDVIKVLDASNKDWWWGQIDDEEGWFPASF 55
>gnl|CDD|227885 COG5598, COG5598, Trimethylamine:corrinoid methyltransferase
[Coenzyme metabolism].
Length = 526
Score = 32.0 bits (73), Expect = 0.95
Identities = 18/68 (26%), Positives = 26/68 (38%), Gaps = 1/68 (1%)
Query: 363 DILEAYKLAVKADPVSAFGGIVAFNVEVDEALAKELREYRSPTDGETRMFYEIVVAPSYT 422
D KLA A + FGG V +VD + L + + F P
Sbjct: 160 DYRNLAKLAQHAPNIHFFGGPVCEPDDVDVN-KRHLDTIYAHLTLSDKHFMGSATGPERA 218
Query: 423 EEGLEILR 430
E+G+E+ R
Sbjct: 219 EDGIEMAR 226
>gnl|CDD|241013 cd12569, RRM4_RBM19, RNA recognition motif 4 in RNA-binding protein
19 (RBM19) and similar proteins. This subgroup
corresponds to the RRM4 of RBM19, also termed
RNA-binding domain-1 (RBD-1), which is a nucleolar
protein conserved in eukaryotes. It is involved in
ribosome biogenesis by processing rRNA. In addition, it
is 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 = 29.3 bits (66), Expect = 0.96
Identities = 13/30 (43%), Positives = 20/30 (66%), Gaps = 1/30 (3%)
Query: 226 ALLEFLKGNQDDQQFRRKLAWKAFQHVASY 255
A++EFL+ ++ FR KLA+ F+HV Y
Sbjct: 39 AIVEFLEPSEAKLAFR-KLAYSKFKHVPLY 67
>gnl|CDD|235383 PRK05273, PRK05273, D-tyrosyl-tRNA(Tyr) deacylase; Provisional.
Length = 147
Score = 30.4 bits (70), Expect = 1.2
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 5/45 (11%)
Query: 417 VAPSYTEEGLEILRGKSKNLRILETKKNKKGK--LSLRQVGGGWL 459
V TEE + L K NLRI E +++GK LS++ VGG L
Sbjct: 33 VEKGDTEEDADYLAEKILNLRIFE---DEEGKMNLSVQDVGGEIL 74
>gnl|CDD|224407 COG1490, Dtd, D-Tyr-tRNAtyr deacylase [Translation, ribosomal
structure and biogenesis].
Length = 145
Score = 29.9 bits (68), Expect = 1.6
Identities = 18/43 (41%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 417 VAPSYTEEGLEILRGKSKNLRILETKKNKKGKLSLRQVGGGWL 459
V TEE + L K NLRI E ++ K LS++ VGG L
Sbjct: 33 VTHDDTEEDADYLAEKILNLRIFEDEEGKM-NLSVQDVGGEIL 74
>gnl|CDD|221718 pfam12695, Abhydrolase_5, Alpha/beta hydrolase family. This family
contains a diverse range of alpha/beta hydrolase
enzymes.
Length = 145
Score = 30.0 bits (68), Expect = 1.6
Identities = 19/88 (21%), Positives = 31/88 (35%), Gaps = 14/88 (15%)
Query: 144 HGGILARRDQKHHMDALSEHGIGTFDLVVVNLYPFYDKVTSAGGI-----DFEDGIENI- 197
HG AL+ G +++V V+ YP + A D E I
Sbjct: 6 HGAGGDPEAYAPLARALASRG---YNVVAVD-YPGHGASLGAPDAEAVLADAPLDPERIV 61
Query: 198 ----DIGGPAMIRAAAKNHKDVLVVVGS 221
+GG + AA++ + VV +
Sbjct: 62 LVGHSLGGGVALLLAARDPRVKAAVVLA 89
>gnl|CDD|233698 TIGR02049, gshA_ferroox, glutamate--cysteine ligase, T.
ferrooxidans family. This family consists of a rare
family of glutamate--cysteine ligases, demonstrated
first in Thiobacillus ferrooxidans and present in a few
other Proteobacteria. It is the first of two enzymes for
glutathione biosynthesis. It is also called
gamma-glutamylcysteine synthetase [Biosynthesis of
cofactors, prosthetic groups, and carriers, Glutathione
and analogs].
Length = 403
Score = 30.6 bits (69), Expect = 1.9
Identities = 16/66 (24%), Positives = 30/66 (45%), Gaps = 5/66 (7%)
Query: 129 PEMLDGRVKTLHPNIHGGILARRDQKH--HMDALSEHGIGTFDLVVVNLYPFYDKVTSAG 186
P++L G + + P +H G +RR H ++ + + P+++K
Sbjct: 165 PDILKGIKQDILPPLHAGWHSRRKSNHFEAYQEVASEFAKLIGIDPWLINPYFEKC---D 221
Query: 187 GIDFED 192
GIDF+D
Sbjct: 222 GIDFDD 227
>gnl|CDD|177025 CHL00093, groEL, chaperonin GroEL.
Length = 529
Score = 30.5 bits (69), Expect = 2.6
Identities = 18/36 (50%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 180 DKVTSAGGIDFEDGIENIDIGGPAMIRAAAKNHKDV 215
D VT A I+ ED IEN G A+IR AA DV
Sbjct: 51 DGVTIAKEIELEDHIENT---GVALIRQAASKTNDV 83
>gnl|CDD|212906 cd11973, SH3_ASEF, Src homology 3 domain of APC-Stimulated guanine
nucleotide Exchange Factor. ASEF, also called ARHGEF4,
exists in an autoinhibited form and is activated upon
binding of the tumor suppressor APC (adenomatous
polyposis coli). GEFs activate small GTPases by
exchanging bound GDP for free GTP. ASEF can activate
Rac1 or Cdc42. Truncated ASEF, which is found in
colorectal cancers, is constitutively active and has
been shown to promote angiogenesis and cancer cell
migration. ASEF contains a SH3 domain followed by RhoGEF
(also called Dbl-homologous or DH) and Pleckstrin
Homology (PH) domains. In its autoinhibited form, the
SH3 domain of ASEF forms an extensive interface with the
DH and PH domains, blocking the Rac binding site. SH3
domains are protein interaction domains that bind to
proline-rich ligands with moderate affinity and
selectivity, preferentially to PxxP motifs. They play
versatile and diverse roles in the cell including the
regulation of enzymes, changing the subcellular
localization of signaling pathway components, and
mediating the formation of multiprotein complex
assemblies.
Length = 73
Score = 28.1 bits (62), Expect = 2.7
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 5/43 (11%)
Query: 236 DDQQFRRKLAWKAFQHVASYDSAVSEWLWKQIAE-EDKFPPSF 277
DDQ+ L +KA + D+ EW W ++ + E FP SF
Sbjct: 30 DDQE----LGFKAGDVIEVMDATNKEWWWGRVLDSEGWFPASF 68
>gnl|CDD|237833 PRK14845, PRK14845, translation initiation factor IF-2;
Provisional.
Length = 1049
Score = 30.2 bits (68), Expect = 3.1
Identities = 15/49 (30%), Positives = 27/49 (55%), Gaps = 5/49 (10%)
Query: 357 GVASRDDILEAYKLAVK-ADPVSAFGGIVAFNVEVDEALAKELREYRSP 404
G ++ D++EA L+ K +P+ +G I+ FNV+V +E +Y
Sbjct: 842 GDITKKDVIEA--LSYKQENPL--YGVILGFNVKVLPEAQEEAEKYGVK 886
>gnl|CDD|202294 pfam02580, Tyr_Deacylase, D-Tyr-tRNA(Tyr) deacylase. This family
comprises of several D-Tyr-tRNA(Tyr) deacylase proteins.
Cell growth inhibition by several d-amino acids can be
explained by an in vivo production of d-aminoacyl-tRNA
molecules. Escherichia coli and yeast cells express an
enzyme, d-Tyr-tRNA(Tyr) deacylase, capable of recycling
such d-aminoacyl-tRNA molecules into free tRNA and
d-amino acid. Accordingly, upon inactivation of the
genes of the above deacylases, the toxicity of d-amino
acids increases. Orthologues of the deacylase are found
in many cells.
Length = 144
Score = 29.0 bits (66), Expect = 3.4
Identities = 20/43 (46%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 417 VAPSYTEEGLEILRGKSKNLRILETKKNKKGKLSLRQVGGGWL 459
V TEE L L K NLRI E ++ K LSL+ VGG L
Sbjct: 32 VTKDDTEEDLRYLVEKILNLRIFEDEEGKM-NLSLKDVGGEIL 73
>gnl|CDD|179635 PRK03708, ppnK, inorganic polyphosphate/ATP-NAD kinase;
Provisional.
Length = 277
Score = 29.7 bits (67), Expect = 3.5
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 3/47 (6%)
Query: 357 GVASRDDILEAYKLAVKADPVSAFGGIVAFNVEVDEALAKELREYRS 403
G+ +R D EA KLA + V F + + V VD + L E+
Sbjct: 4 GIVARRDKEEALKLAYR---VYDFLKVSGYEVVVDSETYEHLPEFSE 47
>gnl|CDD|205856 pfam13680, DUF4152, Protein of unknown function (DUF4152). This
family of proteins is functionally uncharacterized. This
family of proteins is found in archaea. Proteins in this
family are approximately 230 amino acids in length. The
structure of PF2046 from pyrococcus furiosus has been
solved. It shows an RNaseH like fold that conserves
critical catalytic residues. This suggests that these
proteins may cleave nucleic acid.
Length = 227
Score = 29.4 bits (66), Expect = 3.8
Identities = 29/112 (25%), Positives = 46/112 (41%), Gaps = 34/112 (30%)
Query: 342 FKNPTCVIVKHTNPCGV------ASRDDILEAYKLA--VKADPV---SAFGGIVAFNVEV 390
+K IVK+ +P A +D++ A +LA VK D + S GGI
Sbjct: 34 YKTAKESIVKYADPFNYDLSGRQAIKDEVFLAIELAKKVKPDVIHLDSTLGGI------- 86
Query: 391 DEALAKELREYRSPTDGETRMFYEIVVAPSYTEEGLEILRGKSKNLRILETK 442
E+R+ PT + A ++ G E+ + SK+L+ L K
Sbjct: 87 ------EVRKLDEPT----------IDALRISDRGKEVWKELSKDLQPLAKK 122
>gnl|CDD|219707 pfam08033, Sec23_BS, Sec23/Sec24 beta-sandwich domain.
Length = 86
Score = 27.5 bits (62), Expect = 4.0
Identities = 8/26 (30%), Positives = 14/26 (53%), Gaps = 4/26 (15%)
Query: 21 ILYTLLNKKRIPIFCVRVHTTSLRFS 46
+LYT + +R +RV T +L +
Sbjct: 65 LLYTHSSGER----RIRVTTVALPVT 86
>gnl|CDD|224129 COG1208, GCD1, Nucleoside-diphosphate-sugar pyrophosphorylase
involved in lipopolysaccharide biosynthesis/translation
initiation factor 2B, gamma/epsilon subunits
(eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis,
outer membrane / Translation, ribosomal structure and
biogenesis].
Length = 358
Score = 29.6 bits (67), Expect = 4.0
Identities = 21/95 (22%), Positives = 33/95 (34%), Gaps = 15/95 (15%)
Query: 155 HHMDALSEHGIGTFDLVVVNLYP------FYDKVTSAGGIDFEDGIENIDIGGPAMIRAA 208
+ ++AL+ G+ ++VV F D I + E + G ++ A
Sbjct: 37 YVLEALAAAGVEEI-VLVVGYLGEQIEEYFGDGEGLGVRITYVVEKEPLGTAGA--LKNA 93
Query: 209 AK--NHKDVLVVVG----SEDYPALLEFLKGNQDD 237
D LV+ G D LLEF K
Sbjct: 94 LDLLGGDDFLVLNGDVLTDLDLSELLEFHKKKGAL 128
>gnl|CDD|215667 pfam00031, Cystatin, Cystatin domain. Very diverse family.
Attempts to define separate sub-families failed.
Typically, either the N-terminal or C-terminal end is
very divergent. But splitting into two domains would
make very short families. pfam00666 are related to this
family but have not been included.
Length = 92
Score = 27.7 bits (62), Expect = 4.5
Identities = 20/78 (25%), Positives = 30/78 (38%), Gaps = 10/78 (12%)
Query: 381 GGIVAFNV---EVDEALAKELREYRSPTDGETRMFYEI------VVAPSYTEEGLEILRG 431
GG+ N EV EAL L +Y + ++ E+ VVA +E+
Sbjct: 1 GGLSPANDNDPEVQEALDFALAKYNAKSNNYYFELVEVLRAKSQVVAGMNYYIKVEVGET 60
Query: 432 K-SKNLRILETKKNKKGK 448
SK+ + LE K
Sbjct: 61 NCSKSKKDLEDCPLLDEK 78
>gnl|CDD|235181 PRK03958, PRK03958, tRNA 2'-O-methylase; Reviewed.
Length = 176
Score = 28.8 bits (65), Expect = 4.5
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 205 IRAAAKNHKDVLVVVGSEDYP 225
IR A + + +L+VVG+E P
Sbjct: 96 IREAHRKGEPLLIVVGAEKVP 116
>gnl|CDD|143588 cd07564, nitrilases_CHs, Nitrilases, cyanide hydratase (CH)s, and
similar proteins (class 1 nitrilases). Nitrilases
(nitrile aminohydrolases, EC:3.5.5.1) hydrolyze nitriles
(RCN) to ammonia and the corresponding carboxylic acid.
Most nitrilases prefer aromatic nitriles, some prefer
arylacetonitriles and others aliphatic nitriles. This
group includes the nitrilase cyanide dihydratase (CDH),
which hydrolyzes inorganic cyanide (HCN) to produce
formate. It also includes cyanide hydratase (CH), which
hydrolyzes HCN to formamide. This group includes four
Arabidopsis thaliana nitrilases (Ath)NIT1-4. AthNIT1-3
have a strong substrate preference for
phenylpropionitrile (PPN) and other nitriles which may
originate from the breakdown of glucosinolates. The
product of PPN hydrolysis, phenylacetic acid has auxin
activity. AthNIT1-3 can also convert indoacetonitrile to
indole-3-acetic acid (IAA, auxin), but with a lower
affinity and velocity. From their expression patterns,
it has been speculated that NIT3 may produce IAA during
the early stages of germination, and that NIT3 may
produce IAA during embryo development and maturation.
AthNIT4 has a strong substrate specificity for the
nitrile, beta-cyano-L-alanine (Ala(CN)), an intermediate
of cyanide detoxification. AthNIT4 has both a nitrilase
activity and a nitrile hydratase (NHase) activity, which
generate aspartic acid and asparagine respectively from
Ala(CN). NHase catalyzes the hydration of nitriles to
their corresponding amides. This subgroup belongs to a
larger nitrilase superfamily comprised of belong to a
larger nitrilase superfamily comprised of nitrile- or
amide-hydrolyzing enzymes and amide-condensing enzymes,
which depend on a Glu-Lys-Cys catalytic triad. This
superfamily has been classified in the literature based
on global and structure based sequence analysis into
thirteen different enzyme classes (referred to as 1-13),
this subgroup corresponds to class 1.
Length = 297
Score = 29.4 bits (67), Expect = 4.6
Identities = 9/29 (31%), Positives = 18/29 (62%), Gaps = 4/29 (13%)
Query: 197 IDIGGPAM--IRAAAKNHKDVLVVVG-SE 222
+++ GP + + AA+ + + VV+G SE
Sbjct: 71 VEVDGPELERLAEAARENG-IYVVLGVSE 98
>gnl|CDD|129582 TIGR00491, aIF-2, translation initiation factor aIF-2/yIF-2. This
model describes archaeal and eukaryotic orthologs of
bacterial IF-2. Like IF-2, it helps convey the initiator
tRNA to the ribosome, although the initiator is
N-formyl-Met in bacteria and Met here. This protein is
not closely related to the subunits of eIF-2 of
eukaryotes, which is also involved in the initiation of
translation. The aIF-2 of Methanococcus jannaschii
contains a large intein interrupting a region of very
strongly conserved sequence very near the amino end; the
alignment generated by This model does not correctly
align the sequences from Methanococcus jannaschii and
Pyrococcus horikoshii in this region [Protein synthesis,
Translation factors].
Length = 590
Score = 29.4 bits (66), Expect = 5.2
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 357 GVASRDDILEAYKLAVKADPVSAFGGIVAFNVEVDEALAKELREY 401
G S+ D++EA + +G I+AFNV+V +EL++Y
Sbjct: 384 GDVSKRDVVEA---GIAKQEDRVYGAIIAFNVKVLPGAEQELKKY 425
>gnl|CDD|216797 pfam01936, NYN, NYN domain. These domains are found in the
eukaryotic proteins typified by the Nedd4-binding
protein 1 and the bacterial YacP-like proteins
(Nedd4-BP1, YacP nucleases; NYN domains). The NYN domain
shares a common protein fold with two other previously
characterized groups of nucleases, namely the PIN (PilT
N-terminal) and FLAP/5' --> 3' exonuclease
superfamilies. These proteins share a common set of 4
acidic conserved residues that are predicted to
constitute their active site. Based on the conservation
of the acidic residues and structural elements Aravind
and colleagues suggest that PIN and NYN domains are
likely to bind only a single metal ion, unlike the
FLAP/5' --> 3' exonuclease superfamily, which binds two
metal ions. Based on conserved gene neighborhoods
Aravind and colleagues infer that the bacterial members
are likely to be components of the processome/degradsome
that process tRNAs or ribosomal RNAs.
Length = 141
Score = 28.4 bits (64), Expect = 5.3
Identities = 22/88 (25%), Positives = 32/88 (36%), Gaps = 16/88 (18%)
Query: 146 GILARRDQKHHMDALSEHGIGTFDLVVVNLYPFYDKVTSAGGIDFEDGIENIDIGGPAMI 205
G + DALS GI V P K + +D ++ +
Sbjct: 39 GNWGDPKLRKFPDALSSTGI------PVQHKP-LTKGSGKNAVDVGLAVD--------AL 83
Query: 206 RAAAKNHKDVLVVV-GSEDYPALLEFLK 232
A N+ D V+V G D+ LLE L+
Sbjct: 84 ELAYDNNPDTFVLVSGDGDFAPLLERLR 111
>gnl|CDD|132465 TIGR03424, urea_degr_1, urea carboxylase-associated protein 1. A
number of bacteria degrade urea as a nitrogen source by
the urea carboxylase/allophanate hydrolase pathway,
which uses biotin and consumes ATP, rather than my means
of the nickel-dependent enzyme urease. This model
represents one of a pair of homologous, tandem
uncharacterized genes found together with the urea
carboxylase and allophanate hydrolase genes.
Length = 198
Score = 28.9 bits (65), Expect = 5.6
Identities = 22/79 (27%), Positives = 35/79 (44%), Gaps = 22/79 (27%)
Query: 153 QKHHMDA--------LSEHGIGTFDLVVVNLYPFYD-KVTSAGGIDFEDGIENIDIGGPA 203
K +M A ++++G+G D+V N+ F + VT G + DGI P
Sbjct: 107 HKKYMHACRDNFLLAIAKYGLGKRDIVS-NINFFMNVPVTPDGSLTIVDGIS-----APG 160
Query: 204 M---IRAAAKNHKDVLVVV 219
+RA DVLV++
Sbjct: 161 KYVELRA----EMDVLVLI 175
>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 = 29.6 bits (67), Expect = 5.6
Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 83 SDKKDLASLGIGLQELGYTIVSTGGTATSLENAGVSVTKVEQLT-CFPEMLD 133
DK++L L L E GY + +T GTA L AG+ V +++ P +LD
Sbjct: 947 KDKEELLDLARKLAEKGYKLYATEGTAKFLGEAGIKPELVLKVSEGRPNILD 998
>gnl|CDD|239967 cd04594, CBS_pair_EriC_assoc_archaea, This cd contains two tandem
repeats of the cystathionine beta-synthase (CBS pair)
domains associated with the EriC CIC-type chloride
channels in archaea. These ion channels are proteins
with a seemingly simple task of allowing the passive
flow of chloride ions across biological membranes.
CIC-type chloride channels come from all kingdoms of
life, have several gene families, and can be gated by
voltage. The members of the CIC-type chloride channel
are double-barreled: two proteins forming homodimers at
a broad interface formed by four helices from each
protein. The two pores are not found at this interface,
but are completely contained within each subunit, as
deduced from the mutational analyses, unlike many other
channels, in which four or five identical or
structurally related subunits jointly form one pore. CBS
is a small domain originally identified in cystathionine
beta-synthase and subsequently found in a wide range of
different proteins. CBS domains usually come in tandem
repeats, which associate to form a so-called Bateman
domain or a CBS pair which is reflected in this model.
The interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is unknown.
Mutations of conserved residues within this domain in
CLC chloride channel family members have been associated
with classic Bartter syndrome, Osteopetrosis, Dent's
disease, idiopathic generalized epilepsy, and myotonia.
Length = 104
Score = 27.3 bits (61), Expect = 6.4
Identities = 11/36 (30%), Positives = 18/36 (50%)
Query: 332 ADAAWNCVSEFKNPTCVIVKHTNPCGVASRDDILEA 367
A+ AW + + K C +V G+ + D IL+A
Sbjct: 69 AEEAWEVMMKNKTRWCPVVDDGKFKGIVTLDSILDA 104
>gnl|CDD|223229 COG0151, PurD, Phosphoribosylamine-glycine ligase [Nucleotide
transport and metabolism].
Length = 428
Score = 29.1 bits (66), Expect = 7.0
Identities = 14/39 (35%), Positives = 17/39 (43%), Gaps = 1/39 (2%)
Query: 186 GGIDFEDGIENIDIG-GPAMIRAAAKNHKDVLVVVGSED 223
G E + NI+I + A AK LVVVG E
Sbjct: 35 PGTALEAYLVNIEIDTDHEALVAFAKEKNVDLVVVGPEA 73
>gnl|CDD|215639 PLN03226, PLN03226, serine hydroxymethyltransferase; Provisional.
Length = 475
Score = 28.8 bits (65), Expect = 7.1
Identities = 22/79 (27%), Positives = 35/79 (44%), Gaps = 15/79 (18%)
Query: 55 HSHTVS---VPTNQPQSSSSSQANKQALISLSDKKDLASLGIGLQELGYTIVSTGGTAT- 110
H+HT++ V Q + KQ K + A+L L GY +V TGGT
Sbjct: 293 HNHTIAALAVALKQAMTPEFKAYQKQV------KANAAALANRLMSKGYKLV-TGGTDNH 345
Query: 111 ----SLENAGVSVTKVEQL 125
L G++ ++VE++
Sbjct: 346 LVLWDLRPLGLTGSRVEKV 364
>gnl|CDD|214792 smart00729, Elp3, Elongator protein 3, MiaB family, Radical SAM.
This superfamily contains MoaA, NifB, PqqE,
coproporphyrinogen III oxidase, biotin synthase and MiaB
families, and includes a representative in the
eukaryotic elongator subunit, Elp-3. Some members of the
family are methyltransferases.
Length = 216
Score = 28.5 bits (64), Expect = 7.5
Identities = 23/85 (27%), Positives = 34/85 (40%), Gaps = 15/85 (17%)
Query: 359 ASRDDILEAYKLAVKADPVS-AFGGIVAF---NVEVDEALAKELREYR---------SPT 405
+ +D+LEA +L +A P+ + IV E E K L+E SP
Sbjct: 133 HTVEDVLEAVELLREAGPIKVSTDLIVGLPGETEEDFEETLKLLKELGPDRVSIFPLSPR 192
Query: 406 DGETRMF-YEIVVAPSYTEEGLEIL 429
G T + + P EE E+L
Sbjct: 193 PG-TPLAKMYKRLKPPTKEERAELL 216
>gnl|CDD|224250 COG1331, COG1331, Highly conserved protein containing a thioredoxin
domain [Posttranslational modification, protein
turnover, chaperones].
Length = 667
Score = 28.9 bits (65), Expect = 7.7
Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 272 KFPPSFTVPLELKSSLRYGENPHQKAAFYVDKSLAEVNAGGI 313
KFPP + L+ SLR G+ V ++L + GGI
Sbjct: 208 KFPPPHLLLFLLRYSLRTGDERALDM---VLRTLDAMARGGI 246
>gnl|CDD|219550 pfam07745, Glyco_hydro_53, Glycosyl hydrolase family 53. This
domain belongs to family 53 of the glycosyl hydrolase
classification. These enzymes are enzymes are endo-1,4-
beta-galactanases (EC:3.2.1.89). The structure of this
domain is known and has a TIM barrel fold.
Length = 332
Score = 28.5 bits (64), Expect = 8.7
Identities = 14/61 (22%), Positives = 27/61 (44%), Gaps = 15/61 (24%)
Query: 158 DALSEHGIGTFDLVVVNLYPFYDKVTSAGGIDFEDGIENIDIGGPAMIRAAAKNHKDVLV 217
D L G FD++ V+ YPF+ + + ++++ A++ K V+V
Sbjct: 190 DNLLAAG-VDFDVIGVSYYPFWSGTLA----NLRTNLKDM----------ASRYGKPVMV 234
Query: 218 V 218
V
Sbjct: 235 V 235
>gnl|CDD|130598 TIGR01535, glucan_glucosid, glucan 1,4-alpha-glucosidase. Glucan
1,4-alpha-glucosidase catalyzes the hydrolysis of
terminal 1,4-linked alpha-D-glucose residues from
non-reducing ends of polysaccharides, releasing a
beta-D-glucose monomer. Some forms of this enzyme can
hydrolyze terminal 1,6- and 1,3-alpha-D-glucosidic bonds
in polysaccharides as well [Energy metabolism,
Biosynthesis and degradation of polysaccharides].
Length = 648
Score = 28.7 bits (64), Expect = 8.7
Identities = 18/70 (25%), Positives = 22/70 (31%), Gaps = 2/70 (2%)
Query: 327 NNYLDADAAWNCVSEFK-NPTCVIVKHTNPCGVASRDDILEAYKLAVKADPVSAFGGIVA 385
N+ E K NP I + P G DD Y L D +A
Sbjct: 250 NSLYYVSMMILKAHEDKTNPGAYIASLSIPWGDGQADDNTGGYHLVWPRDLYQVANAFLA 309
Query: 386 FNVEVDEALA 395
+VD AL
Sbjct: 310 AG-DVDSALR 318
>gnl|CDD|215401 PLN02752, PLN02752, [acyl-carrier protein] S-malonyltransferase.
Length = 343
Score = 28.6 bits (64), Expect = 9.1
Identities = 14/42 (33%), Positives = 23/42 (54%)
Query: 179 YDKVTSAGGIDFEDGIENIDIGGPAMIRAAAKNHKDVLVVVG 220
Y + AG + FEDG++ + + G AM AA ++ V+G
Sbjct: 136 YTALVFAGALSFEDGLKLVKLRGEAMQAAADAGPSGMVSVIG 177
>gnl|CDD|220194 pfam09347, DUF1989, Domain of unknown function (DUF1989). This
family of proteins are functionally uncharacterized.
Length = 167
Score = 27.8 bits (63), Expect = 9.8
Identities = 10/37 (27%), Positives = 18/37 (48%), Gaps = 2/37 (5%)
Query: 159 ALSEHGIGTFDLV-VVNLYPFYDKVTSAGGIDFEDGI 194
AL+++G+G D+ +N + V G + F G
Sbjct: 116 ALAKYGLGKRDIPPNINFF-MNVPVDEDGALSFVPGP 151
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.316 0.132 0.384
Gapped
Lambda K H
0.267 0.0850 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 26,597,508
Number of extensions: 2629281
Number of successful extensions: 2553
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2497
Number of HSP's successfully gapped: 59
Length of query: 521
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 420
Effective length of database: 6,457,848
Effective search space: 2712296160
Effective search space used: 2712296160
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 61 (27.1 bits)