RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8475
(233 letters)
>gnl|CDD|180841 PRK07106, PRK07106, 5-aminoimidazole-4-carboxamide ribonucleotide
transformylase; Provisional.
Length = 390
Score = 210 bits (537), Expect = 9e-67
Identities = 80/143 (55%), Positives = 103/143 (72%), Gaps = 1/143 (0%)
Query: 89 LPEFAIRDLTVATIALKYTQSNSVVYAKNGQVIGIGAGQQSRIHCTRLAGDKVDNWYMRH 148
LP+ A RDL +A I LKYTQSNSV YAK+GQ IGIGAGQQSRIHCTRLAG+K D WY+R
Sbjct: 208 LPDEAKRDLIIALITLKYTQSNSVCYAKDGQAIGIGAGQQSRIHCTRLAGNKADIWYLRQ 267
Query: 149 HPNITSWKFRKGVKRAEKSNAIDNYILGTIGKDMDTKTWESFFDGPPPEPMTEKEKADFI 208
HP + + F++G++R ++ NAID Y+ + W+ FF PEP+T +EK ++
Sbjct: 268 HPKVLNLPFKEGIRRPDRDNAIDVYLSDDYMDVLADGVWQQFFT-EKPEPLTREEKRAWL 326
Query: 209 YTLHGVSVASDAFFPFRDNIDRA 231
TL GV++ SDAFFPF DNI+RA
Sbjct: 327 ATLTGVALGSDAFFPFGDNIERA 349
Score = 95.9 bits (239), Expect = 4e-23
Identities = 43/113 (38%), Positives = 64/113 (56%), Gaps = 8/113 (7%)
Query: 1 MRHHPNITSWKFRKGVKRAEKSNAIDNYILGTIGKDMDTKTWESFFDGPPPEPMTEKEKA 60
+R HP + + F++G++R ++ NAID Y+ + W+ FF PEP+T +EK
Sbjct: 265 LRQHPKVLNLPFKEGIRRPDRDNAIDVYLSDDYMDVLADGVWQQFFT-EKPEPLTREEKR 323
Query: 61 DFIYTLHGVSVASDAFFPFRDNIDRA-------VLLPEFAIRDLTVATIALKY 106
++ TL GV++ SDAFFPF DNI+RA + P +IRD V KY
Sbjct: 324 AWLATLTGVALGSDAFFPFGDNIERAAKSGVKYIAQPGGSIRDDNVIETCNKY 376
>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 = 109 bits (273), Expect = 2e-27
Identities = 34/137 (24%), Positives = 54/137 (39%), Gaps = 19/137 (13%)
Query: 91 EFAIRDLTVATIALKYTQSNSVVYAKNGQVIGIGAGQQSRIHCTRLAGDKVDNWYMRHHP 150
E + DL A K+ +SN++VYAKN +G+GAGQ SR+ ++AG K D+
Sbjct: 393 EQELIDLLFAWKVAKHVKSNAIVYAKNNMTVGVGAGQMSRVGSAKIAGIKADD------- 445
Query: 151 NITSWKFRKGVKRAEKSNAIDNYILGTIGKDMDTKT-WESFFDGPPPEPMTEKEKADFIY 209
+G++ S A D + G + P E + +
Sbjct: 446 --------EGLEAKGSSLASDAFFPFRDGVEEAAAAGITCIIQ---PGGSMRDEDSIWAA 494
Query: 210 TLHGVSVASDAFFPFRD 226
HG+ + FR
Sbjct: 495 DEHGIVMVFTGMRHFRH 511
Score = 36.7 bits (85), Expect = 0.007
Identities = 11/69 (15%), Positives = 20/69 (28%), Gaps = 4/69 (5%)
Query: 14 KGVKRAEKSNAIDNYILGTIGKDMDTKT-WESFFDGPPPEPMTEKEKADFIYTLHGVSVA 72
+G++ S A D + G + P E + + HG+ +
Sbjct: 446 EGLEAKGSSLASDAFFPFRDGVEEAAAAGITCIIQ---PGGSMRDEDSIWAADEHGIVMV 502
Query: 73 SDAFFPFRD 81
FR
Sbjct: 503 FTGMRHFRH 511
Score = 32.9 bits (75), Expect = 0.12
Identities = 16/36 (44%), Positives = 23/36 (63%), Gaps = 7/36 (19%)
Query: 68 GVSVASDAFFPFRDNIDRA-------VLLPEFAIRD 96
G S+ASDAFFPFRD ++ A ++ P ++RD
Sbjct: 452 GSSLASDAFFPFRDGVEEAAAAGITCIIQPGGSMRD 487
>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 = 94.1 bits (235), Expect = 6e-23
Identities = 24/52 (46%), Positives = 35/52 (67%)
Query: 89 LPEFAIRDLTVATIALKYTQSNSVVYAKNGQVIGIGAGQQSRIHCTRLAGDK 140
E + DL A +K+ +SN++VYAK+GQ +GIGAGQ SR+ R+A +K
Sbjct: 259 PTEEELADLLFAWKVVKHVKSNAIVYAKDGQTVGIGAGQMSRVDSARIAAEK 310
>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 = 94.0 bits (234), Expect = 7e-23
Identities = 29/51 (56%), Positives = 37/51 (72%)
Query: 91 EFAIRDLTVATIALKYTQSNSVVYAKNGQVIGIGAGQQSRIHCTRLAGDKV 141
E + DL A +K+ +SN++VYAKNG +GIGAGQQSR+H RLAGDK
Sbjct: 265 EQELEDLLFAWKVVKHVKSNAIVYAKNGMTVGIGAGQQSRVHSARLAGDKA 315
>gnl|CDD|223216 COG0138, PurH, AICAR transformylase/IMP cyclohydrolase PurH (only
IMP cyclohydrolase domain in Aful) [Nucleotide transport
and metabolism].
Length = 515
Score = 95.0 bits (237), Expect = 2e-22
Identities = 26/61 (42%), Positives = 39/61 (63%)
Query: 89 LPEFAIRDLTVATIALKYTQSNSVVYAKNGQVIGIGAGQQSRIHCTRLAGDKVDNWYMRH 148
E + DL A +K+ +SN++VYAK+GQ +GIGAGQ SR+ R+A +K + +R
Sbjct: 395 PTEQELEDLLFAWKVVKHVKSNAIVYAKDGQTVGIGAGQMSRVDSARIAAEKAGDAGLRA 454
Query: 149 H 149
H
Sbjct: 455 H 455
Score = 48.8 bits (117), Expect = 7e-07
Identities = 18/31 (58%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 58 EKA-DFIYTLHGVSVASDAFFPFRDNIDRAV 87
EKA D HG +ASDAFFPF D ID A
Sbjct: 445 EKAGDAGLRAHGAVLASDAFFPFPDGIDAAA 475
Score = 48.8 bits (117), Expect = 7e-07
Identities = 18/31 (58%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 203 EKA-DFIYTLHGVSVASDAFFPFRDNIDRAV 232
EKA D HG +ASDAFFPF D ID A
Sbjct: 445 EKAGDAGLRAHGAVLASDAFFPFPDGIDAAA 475
>gnl|CDD|234854 PRK00881, purH, bifunctional
phosphoribosylaminoimidazolecarboxamide
formyltransferase/IMP cyclohydrolase; Provisional.
Length = 513
Score = 59.7 bits (146), Expect = 2e-10
Identities = 23/47 (48%), Positives = 35/47 (74%)
Query: 94 IRDLTVATIALKYTQSNSVVYAKNGQVIGIGAGQQSRIHCTRLAGDK 140
++DL A +K+ +SN++VYAK+GQ +GIGAGQ SR+ R+A +K
Sbjct: 398 LKDLLFAWKVVKHVKSNAIVYAKDGQTVGIGAGQMSRVDSARIAIEK 444
Score = 45.9 bits (110), Expect = 7e-06
Identities = 21/47 (44%), Positives = 27/47 (57%), Gaps = 8/47 (17%)
Query: 58 EKA-DFIYTLHGVSVASDAFFPFRDNID-------RAVLLPEFAIRD 96
EKA D L G +ASDAFFPFRD ++ A++ P +IRD
Sbjct: 443 EKAGDAGLDLKGAVLASDAFFPFRDGVEAAAKAGITAIIQPGGSIRD 489
Score = 44.7 bits (107), Expect = 2e-05
Identities = 17/31 (54%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 203 EKA-DFIYTLHGVSVASDAFFPFRDNIDRAV 232
EKA D L G +ASDAFFPFRD ++ A
Sbjct: 443 EKAGDAGLDLKGAVLASDAFFPFRDGVEAAA 473
>gnl|CDD|178479 PLN02891, PLN02891, IMP cyclohydrolase.
Length = 547
Score = 42.1 bits (99), Expect = 1e-04
Identities = 17/47 (36%), Positives = 33/47 (70%)
Query: 94 IRDLTVATIALKYTQSNSVVYAKNGQVIGIGAGQQSRIHCTRLAGDK 140
+ D A + +K+ +SN++V AKN +++G+G+GQ +R+ R+A +K
Sbjct: 433 LEDAKFAWLCVKHVKSNAIVVAKNNRMLGMGSGQPNRVESLRIALEK 479
Score = 27.1 bits (60), Expect = 9.3
Identities = 9/12 (75%), Positives = 11/12 (91%)
Query: 68 GVSVASDAFFPF 79
G ++ASDAFFPF
Sbjct: 486 GAALASDAFFPF 497
Score = 27.1 bits (60), Expect = 9.3
Identities = 9/12 (75%), Positives = 11/12 (91%)
Query: 213 GVSVASDAFFPF 224
G ++ASDAFFPF
Sbjct: 486 GAALASDAFFPF 497
>gnl|CDD|224293 COG1374, NIP7, Protein involved in ribosomal biogenesis, contains
PUA domain [Translation, ribosomal structure and
biogenesis].
Length = 176
Score = 30.1 bits (68), Expect = 0.68
Identities = 13/57 (22%), Positives = 21/57 (36%), Gaps = 2/57 (3%)
Query: 94 IRDLTVATIALKYTQSNSVVYAKNGQVIGIGAGQQSRIHCTRLAGDKVDN--WYMRH 148
++D I V+ N +GIG G S RL + + + Y+R
Sbjct: 118 LKDHVKEIIDEIPENGGVFVFNMNDVPLGIGVGALSPSEDGRLIKNALKDVGEYLRR 174
>gnl|CDD|184003 PRK13364, PRK13364, protocatechuate 4,5-dioxygenase subunit beta;
Provisional.
Length = 278
Score = 29.7 bits (67), Expect = 1.3
Identities = 24/72 (33%), Positives = 31/72 (43%), Gaps = 18/72 (25%)
Query: 28 YILGTIGK-DMDTKTWESFFDG-PPPEPMTEKEKAD---FIYTLHGVSVASDAFFPFRDN 82
I G I K W+ FFDG PP EK K D Y HG++ FF
Sbjct: 15 AIGGAIAKGLQQDPYWKPFFDGFPPVREWLEKVKPDVAVVFYNDHGLN-----FF----- 64
Query: 83 IDRAVLLPEFAI 94
+D+ +P FA+
Sbjct: 65 LDK---MPTFAV 73
Score = 27.7 bits (62), Expect = 5.4
Identities = 18/46 (39%), Positives = 19/46 (41%), Gaps = 5/46 (10%)
Query: 173 YILGTIGK-DMDTKTWESFFDG-PPPEPMTEKEKAD---FIYTLHG 213
I G I K W+ FFDG PP EK K D Y HG
Sbjct: 15 AIGGAIAKGLQQDPYWKPFFDGFPPVREWLEKVKPDVAVVFYNDHG 60
>gnl|CDD|153386 cd07949, PCA_45_Doxase_B_like_1, The B subunit of unknown Class
III extradiol dioxygenases with similarity to
Protocatechuate 4,5-dioxygenase. This subfamily is
composed of proteins of unknown function with
similarity to the B subunit of Protocatechuate
4,5-dioxygenase (LigAB). LigAB belongs to the class III
extradiol dioxygenase family, a group of enzymes which
use a non-heme Fe(II) to cleave aromatic rings between
a hydroxylated carbon and an adjacent non-hydroxylated
carbon. Dioxygenases play key roles in the degradation
of aromatic compounds. LigAB-like enzymes are usually
composed of two subunits, designated A and B, which
form a tetramer composed of two copies of each subunit.
This model represents the catalytic subunit, B.
Length = 276
Score = 28.9 bits (65), Expect = 1.9
Identities = 25/71 (35%), Positives = 33/71 (46%), Gaps = 18/71 (25%)
Query: 29 ILGTIGKDM-DTKTWESFFDG-PPPEPMTEKEKADF---IYTLHGVSVASDAFFPFRDNI 83
I G I K + T W+ FFDG PP EK K D Y HG++ FF +
Sbjct: 16 IGGAIAKGLQQTPYWKPFFDGFPPVHDWLEKAKPDVAVVFYNDHGLN-----FF-----L 65
Query: 84 DRAVLLPEFAI 94
D+ +P FA+
Sbjct: 66 DK---MPTFAV 73
Score = 27.4 bits (61), Expect = 6.9
Identities = 19/45 (42%), Positives = 21/45 (46%), Gaps = 5/45 (11%)
Query: 174 ILGTIGKDM-DTKTWESFFDG-PPPEPMTEKEKADF---IYTLHG 213
I G I K + T W+ FFDG PP EK K D Y HG
Sbjct: 16 IGGAIAKGLQQTPYWKPFFDGFPPVHDWLEKAKPDVAVVFYNDHG 60
>gnl|CDD|203238 pfam05351, GMP_PDE_delta, GMP-PDE, delta subunit. GMP-PDE delta
subunit was originally identified as a fourth subunit of
rod-specific cGMP phosphodiesterase (PDE)(EC:3.1.4.35).
The precise function of PDE delta subunit in the rod
specific GMP-PDE complex is unclear. In addition, PDE
delta subunit is not confined to photoreceptor cells but
is widely distributed in different tissues. PDE delta
subunit is thought to be a specific soluble transport
factor for certain prenylated proteins and Arl2-GTP a
regulator of PDE-mediated transport.
Length = 156
Score = 28.0 bits (63), Expect = 2.8
Identities = 14/44 (31%), Positives = 18/44 (40%), Gaps = 6/44 (13%)
Query: 39 TKTWESFFDGPPPEPMTEKEKADFIYTLHGVSVASDAFFPFRDN 82
T TWE ++ PP M E SD+F+ F DN
Sbjct: 106 TNTWEHIYEFPPLSQMLPAE-----MLSGPYETRSDSFY-FVDN 143
Score = 28.0 bits (63), Expect = 2.8
Identities = 14/44 (31%), Positives = 18/44 (40%), Gaps = 6/44 (13%)
Query: 184 TKTWESFFDGPPPEPMTEKEKADFIYTLHGVSVASDAFFPFRDN 227
T TWE ++ PP M E SD+F+ F DN
Sbjct: 106 TNTWEHIYEFPPLSQMLPAE-----MLSGPYETRSDSFY-FVDN 143
>gnl|CDD|224494 COG1578, COG1578, Uncharacterized conserved protein [Function
unknown].
Length = 285
Score = 28.5 bits (64), Expect = 3.2
Identities = 10/38 (26%), Positives = 16/38 (42%)
Query: 8 TSWKFRKGVKRAEKSNAIDNYILGTIGKDMDTKTWESF 45
T + VK A N ID +LG D++ + +
Sbjct: 96 TPEDLKTAVKLAIVGNVIDFGVLGFSPFDLEEEVEKLL 133
Score = 28.5 bits (64), Expect = 3.2
Identities = 10/38 (26%), Positives = 16/38 (42%)
Query: 153 TSWKFRKGVKRAEKSNAIDNYILGTIGKDMDTKTWESF 190
T + VK A N ID +LG D++ + +
Sbjct: 96 TPEDLKTAVKLAIVGNVIDFGVLGFSPFDLEEEVEKLL 133
>gnl|CDD|236870 PRK11174, PRK11174, cysteine/glutathione ABC transporter
membrane/ATP-binding component; Reviewed.
Length = 588
Score = 27.9 bits (63), Expect = 5.4
Identities = 16/61 (26%), Positives = 26/61 (42%), Gaps = 9/61 (14%)
Query: 81 DNIDRAVLLPEFAIRDLTVATIALKYTQSNSVVYAKNGQVIGIGAGQQSRIHCTRLAGDK 140
+NI R LLP F L + L+ + + + + +G AGQ R + DK
Sbjct: 55 ENIPREALLPPFI---LLILLFVLRAL----LAWLR--ERVGFKAGQHIRQQIRQQVLDK 105
Query: 141 V 141
+
Sbjct: 106 L 106
>gnl|CDD|165157 PHA02795, PHA02795, ankyrin-like protein; Provisional.
Length = 437
Score = 27.7 bits (61), Expect = 6.3
Identities = 25/110 (22%), Positives = 44/110 (40%), Gaps = 25/110 (22%)
Query: 18 RAEKSNAIDNYILGTIGKD-------MDTKTWESFFDGPPPEPMTEKEKADFIYTLHGVS 70
+ +D+Y +G D +D K ++ F P +P+ D +Y
Sbjct: 18 DLWSLSLVDDYKKHGLGVDCYVLEPVVDRKIFDRFLLEPICDPV------DVLY------ 65
Query: 71 VASDAFFPFRDNIDRAVLLPEFA---IRDLTVATIALKYTQSNSVVYAKN 117
D F RDNID+ ++ FA +D+ A ++ Y + + KN
Sbjct: 66 ---DYFRIHRDNIDQYIVDRLFAYITYKDIISALVSKNYMEDIFSIIIKN 112
>gnl|CDD|232920 TIGR00326, eubact_ribD, riboflavin biosynthesis protein RibD. This
model describes the ribD protein as found in Escherichia
coli. The N-terminal domain includes the conserved
zinc-binding site region captured in the model
dCMP_cyt_deam and shared by proteins such as cytosine
deaminase, mammalian apolipoprotein B mRNA editing
protein, blasticidin-S deaminase, and Bacillus subtilis
competence protein comEB. The C-terminal domain is
homologous to the full length of yeast HTP reductase, a
protein required for riboflavin biosynthesis. A number
of archaeal proteins believed related to riboflavin
biosynthesis contain only this C-terminal domain and are
not found as full-length matches to this model
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Riboflavin, FMN, and FAD].
Length = 344
Score = 27.1 bits (60), Expect = 9.2
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 8/55 (14%)
Query: 94 IRDLTVATIALKYTQSNSVVYA---KNGQVIGIGAGQQ-----SRIHCTRLAGDK 140
R L +A T N +V KNG+++G GA Q+ + +H R AG+
Sbjct: 2 NRALDLAKKGQGTTHPNPLVGCVIVKNGEIVGEGAHQKAGEPHAEVHALRQAGEN 56
>gnl|CDD|214936 smart00956, RQC, This DNA-binding domain is found in the RecQ
helicase among others and has a helix-turn-helix
structure. The RQC domain, found only in RecQ family
enzymes, is a high affinity G4 DNA binding domain.
Length = 92
Score = 25.5 bits (57), Expect = 9.5
Identities = 6/15 (40%), Positives = 7/15 (46%)
Query: 33 IGKDMDTKTWESFFD 47
IGKD+ K W
Sbjct: 50 IGKDLSKKEWRRLIR 64
Score = 25.5 bits (57), Expect = 9.5
Identities = 6/15 (40%), Positives = 7/15 (46%)
Query: 178 IGKDMDTKTWESFFD 192
IGKD+ K W
Sbjct: 50 IGKDLSKKEWRRLIR 64
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.320 0.136 0.421
Gapped
Lambda K H
0.267 0.0849 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,272,797
Number of extensions: 1147091
Number of successful extensions: 999
Number of sequences better than 10.0: 1
Number of HSP's gapped: 994
Number of HSP's successfully gapped: 40
Length of query: 233
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 139
Effective length of database: 6,768,326
Effective search space: 940797314
Effective search space used: 940797314
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (25.5 bits)