RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 029472
(193 letters)
>gnl|CDD|238692 cd01398, RPI_A, RPI_A: Ribose 5-phosphate isomerase type A (RPI_A)
subfamily; RPI catalyzes the reversible conversion of
ribose-5-phosphate to ribulose 5-phosphate, the first
step of the non-oxidative branch of the pentose
phosphate pathway. This reaction leads to the conversion
of phosphosugars into glycolysis intermediates, which
are precursors for the synthesis of amino acids,
vitamins, nucleotides, and cell wall components. In
plants, RPI is part of the Calvin cycle as ribulose
5-phosphate is the carbon dioxide receptor in the first
dark reaction of photosynthesis. There are two unrelated
types of RPIs (A and B), which catalyze the same
reaction, at least one type of RPI is present in an
organism. RPI_A is more widely distributed than RPI_B in
bacteria, eukaryotes, and archaea.
Length = 213
Score = 124 bits (313), Expect = 7e-36
Identities = 50/153 (32%), Positives = 80/153 (52%), Gaps = 9/153 (5%)
Query: 27 RAAKHTVDTYITSGMVVGLGSGQASAMAIEYMGRQLRAGALKDVIGIPTSVASANEAAVA 86
AA+ VD Y+ GMV+GLG+G A IE +G ++R +++G+PTS + A
Sbjct: 4 AAARAAVD-YVEDGMVIGLGTGSTVAYFIEALGERVREE-GLNIVGVPTSFQTEELAREL 61
Query: 87 GIPLDQYRDTSQIDFAFDDADIIEEGTLVAVIGRQQPKGDESIIQEKSVLNAADKLVFMV 146
GIPL + ++D A D AD ++ L + G G ++++EK V +AA K + +
Sbjct: 62 GIPLTDLDEVPRLDLAIDGADEVDP-DLNLIKG-----GGGALLREKIVASAAKKFIVIA 115
Query: 147 SENQYKGVLD-GSVPVLVQPVNWMETAEEIDDL 178
E++ L +PV V P W A E++ L
Sbjct: 116 DESKLVERLGEFPLPVEVVPFAWSYVARELEKL 148
>gnl|CDD|223198 COG0120, RpiA, Ribose 5-phosphate isomerase [Carbohydrate transport
and metabolism].
Length = 227
Score = 83.8 bits (208), Expect = 3e-20
Identities = 47/152 (30%), Positives = 80/152 (52%), Gaps = 10/152 (6%)
Query: 28 AAKHTVDTYITSGMVVGLGSGQASAMAIEYMGRQLRAGALKDVIGIPTSVASANEAAVAG 87
AAK ++ Y+ GMV+GLG+G +A IE +GR+++ D+ G+PTS + A G
Sbjct: 10 AAKAALE-YVKDGMVIGLGTGSTAAYFIEALGRRVKGE--LDIGGVPTSFQTEELARELG 66
Query: 88 IPLDQYRDTSQIDFAFDDADIIEEGTLVAVIGRQQPKGDESIIQEKSVLNAADKLVFMVS 147
IP+ + +D A D AD ++ L + G G ++++EK V +AA + + +V
Sbjct: 67 IPVSSLNEVDSLDLAIDGADEVDPN-LNLIKG-----GGGALLREKIVASAAKRFIVIVD 120
Query: 148 ENQYKGVLDG-SVPVLVQPVNWMETAEEIDDL 178
E++ VL +PV V P +++ L
Sbjct: 121 ESKLVEVLGKFPLPVEVIPFARSAVLRKLEKL 152
>gnl|CDD|215215 PLN02384, PLN02384, ribose-5-phosphate isomerase.
Length = 264
Score = 84.5 bits (209), Expect = 4e-20
Identities = 56/158 (35%), Positives = 85/158 (53%), Gaps = 9/158 (5%)
Query: 25 LFRAAKHTVDTYITSGMVVGLGSGQASAMAIEYMGRQLRAGALKDVIGIPTSVASANEAA 84
L + A + ++ SGMV+GLG+G + A++ +G LR G LK++IGIPTS + +A
Sbjct: 35 LKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLKNIIGIPTSKKTHEQAV 94
Query: 85 VAGIPLDQYRDTSQIDFAFDDADIIEEGTLVAVIGRQQPKGDESIIQEKSVLNAADKLVF 144
GIPL +D A D AD ++ L V GR S+++EK + A K V
Sbjct: 95 SLGIPLSDLDSHPVVDLAIDGADEVDP-NLNLVKGR-----GGSLLREKMIEGACKKFVV 148
Query: 145 MVSENQ---YKGVLDGSVPVLVQPVNWMETAEEIDDLF 179
+V E++ + G ++PV V P W TAE++ LF
Sbjct: 149 IVDESKLVKHIGGSGLAMPVEVVPFCWKFTAEKLQSLF 186
>gnl|CDD|232786 TIGR00021, rpiA, ribose 5-phosphate isomerase. This model
describes ribose 5-phosphate isomerase, an enzyme of the
non-oxidative branch of the pentose phosphate pathway
[Energy metabolism, Pentose phosphate pathway].
Length = 218
Score = 83.4 bits (207), Expect = 5e-20
Identities = 48/150 (32%), Positives = 78/150 (52%), Gaps = 8/150 (5%)
Query: 27 RAAKHTVDTYITSGMVVGLGSGQASAMAIEYMGRQLRAGALKDVIGIPTSVASANEAAVA 86
RAA Y+ GMVVGLG+G A IE +G +++ L D++G+PTS +A A
Sbjct: 3 RAAAEAAAEYVEDGMVVGLGTGSTVAYFIEALGERVKQEGL-DIVGVPTSKQTAELAREL 61
Query: 87 GIPLDQYRDTSQIDFAFDDADIIEEGTLVAVIGRQQPKGDESIIQEKSVLNAADKLVFMV 146
GIPL + ++D A D AD ++ L + G G ++++EK V +A+ + + +
Sbjct: 62 GIPLSSLDEVPELDLAIDGADEVDPN-LQLIKG-----GGGALLREKIVASASKRFIVIA 115
Query: 147 SENQYKGVL-DGSVPVLVQPVNWMETAEEI 175
E++ L +PV V P W A ++
Sbjct: 116 DESKLVDKLGKFPLPVEVVPFAWKAVARKL 145
>gnl|CDD|234816 PRK00702, PRK00702, ribose-5-phosphate isomerase A; Provisional.
Length = 220
Score = 71.2 bits (176), Expect = 2e-15
Identities = 49/155 (31%), Positives = 76/155 (49%), Gaps = 14/155 (9%)
Query: 27 RAAKHTVDTYITSGMVVGLGSGQASAMAIEYMGRQLRAGALKDVIGIPTSVASANEAAVA 86
AA+ + Y+ GM+VGLG+G +A I+ +G +++ G + G+PTS AS A
Sbjct: 9 AAAEAAAE-YVEDGMIVGLGTGSTAAYFIDALGERVKEG--LIIGGVPTSEASTELAKEL 65
Query: 87 GIPLDQYRDTSQIDFAFDDAD-IIEEGTLVAVIGRQQPKG-DESIIQEKSVLNAADKLVF 144
GIPL + +D D AD I L+ KG ++ +EK V AA + +
Sbjct: 66 GIPLFDLNEVDSLDLYVDGADEIDPHLNLI--------KGGGAALTREKIVAAAAKRFIC 117
Query: 145 MVSENQYKGVLDG-SVPVLVQPVNWMETAEEIDDL 178
+V E++ VL +PV V P A E++ L
Sbjct: 118 IVDESKLVDVLGKFPLPVEVIPFARSAVARELEKL 152
>gnl|CDD|218860 pfam06026, Rib_5-P_isom_A, Ribose 5-phosphate isomerase A
(phosphoriboisomerase A). This family consists of
several ribose 5-phosphate isomerase A or
phosphoriboisomerase A (EC:5.3.1.6) from bacteria,
eukaryotes and archaea.
Length = 172
Score = 53.6 bits (130), Expect = 2e-09
Identities = 32/107 (29%), Positives = 53/107 (49%), Gaps = 7/107 (6%)
Query: 70 VIGIPTSVASANEAAVAGIPLDQYRDTSQIDFAFDDADIIEEGTLVAVIGRQQPKGDESI 129
++G+PTS + A GIPL + ++D A D AD ++ L + G G ++
Sbjct: 1 IVGVPTSFQTEELAKELGIPLSDLDEVDELDLAIDGADEVDPN-LNLIKG-----GGGAL 54
Query: 130 IQEKSVLNAADKLVFMVSENQYKGVLDG-SVPVLVQPVNWMETAEEI 175
++EK V +AA K + +V E++ VL +PV V P W +
Sbjct: 55 LREKIVASAAKKFIVIVDESKLVDVLGKFPLPVEVVPFAWSYVLRRL 101
>gnl|CDD|184433 PRK13978, PRK13978, ribose-5-phosphate isomerase A; Provisional.
Length = 228
Score = 43.6 bits (103), Expect = 1e-05
Identities = 36/143 (25%), Positives = 63/143 (44%), Gaps = 9/143 (6%)
Query: 37 ITSGMVVGLGSGQASAMAIEYMGRQLRAGALKDVIGIPTSVASANEAAVAGIPLDQYRDT 96
I M +G+G+G + + M + ++ + G+ TS A A GI + + D
Sbjct: 19 INGDMTLGIGTGSTMELLLPQMAQLIKERGYN-ITGVCTSNKIAFLAKELGIKICEINDV 77
Query: 97 SQIDFAFDDADIIEEGTLVAVIGRQQPKGDESIIQEKSVLNAADKLVFMVSENQYKGVLD 156
ID A D AD ++ +L + G G ++ +EK + A + V +V E + L
Sbjct: 78 DHIDLAIDGADEVDP-SLNIIKG-----GGGALFREKVIDEMASRFVVVVDETKIVQYLG 131
Query: 157 GS--VPVLVQPVNWMETAEEIDD 177
+ +PV V NW +I+
Sbjct: 132 ETFKLPVEVDKFNWYHILRKIES 154
>gnl|CDD|238258 cd00458, SugarP_isomerase, SugarP_isomerase: Sugar Phosphate
Isomerase family; includes type A ribose 5-phosphate
isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P)
deaminase, and 6-phosphogluconolactonase (6PGL). RPI
catalyzes the reversible conversion of
ribose-5-phosphate to ribulose 5-phosphate, the first
step of the non-oxidative branch of the pentose
phosphate pathway. GlcN6P deaminase catalyzes the
reversible conversion of GlcN6P to
D-fructose-6-phosphate (Fru6P) and ammonium, the last
step of the metabolic pathway of
N-acetyl-D-glucosamine-6-phosphate. 6PGL converts
6-phosphoglucono-1,5-lactone to 6-phosphogluconate, the
second step of the oxidative phase of the pentose
phosphate pathway.
Length = 169
Score = 39.3 bits (91), Expect = 3e-04
Identities = 31/140 (22%), Positives = 54/140 (38%), Gaps = 18/140 (12%)
Query: 41 MVVGLGSGQASAMAIEYMGRQLRAGALKDVIGIPTSVASANEAAVAGIPLDQYRDTSQID 100
MV+GLG+G A + +G +L+ G + D++G PT + Q
Sbjct: 22 MVIGLGTGSTPAYFYKLLGEKLKRGEISDIVGFPTD-------ERYVPLDSDQSNFRQAK 74
Query: 101 -FAFDDADIIEEGTLVAVIGRQQPKGDESIIQEKSVLNAADKL-VFMVSENQYKGVLDGS 158
AF+ I V + P E+ +L+ D + + + G G+
Sbjct: 75 LLAFEHDIIPASN--VHYVDTSLPIEKACEKYEREILDQVDAIDLAVDG----AGYRAGT 128
Query: 159 VPVLV---QPVNWMETAEEI 175
V VLV + V+++ E
Sbjct: 129 VIVLVDGRKKVDYLCQNTEP 148
>gnl|CDD|117527 pfam08961, DUF1875, Domain of unknown function (DUF1875). The MIT
domain, found in Nuclear receptor-binding factor 2, has
no known function.
Length = 243
Score = 28.6 bits (63), Expect = 1.7
Identities = 13/35 (37%), Positives = 24/35 (68%), Gaps = 2/35 (5%)
Query: 118 IGRQQPKGDESIIQEKSV-LNAADKLV-FMVSENQ 150
IG + PK D++II+E++ + + V F+V+EN+
Sbjct: 112 IGSKAPKDDKTIIEEQATKIADLKRHVEFLVAENE 146
>gnl|CDD|233974 TIGR02682, cas_csx11, CRISPR-associated protein, Csx11 family.
Members of this uncommon, sporadically distributed
protein family are large (>900 amino acids) and strictly
associated, so far, with CRISPR-associated (Cas) gene
clusters. Nearby Cas genes always include members of the
RAMP superfamily and the six-gene CRISPR-associated RAMP
module. Species in which it is found, so far, include
three archaea (Methanosarcina mazei, M. barkeri and
Methanobacterium thermoautotrophicum) and two bacteria
(Thermodesulfovibrio yellowstonii DSM 11347 and
Sulfurihydrogenibium azorense) [Mobile and
extrachromosomal element functions, Other].
Length = 918
Score = 29.1 bits (65), Expect = 1.7
Identities = 13/70 (18%), Positives = 26/70 (37%), Gaps = 10/70 (14%)
Query: 93 YRDTSQIDFAFDDADIIEEGTLVAVIGRQQPKGDESI----------IQEKSVLNAADKL 142
YRD + I F + D E+ L ++ + +E I + +L A +
Sbjct: 286 YRDDTGIYFIVPELDKNEDNNLAVLVDDLKLLEEEIINEFEEKITGEVCSVILLTKASRG 345
Query: 143 VFMVSENQYK 152
+ +S+
Sbjct: 346 LMNLSDLVEP 355
>gnl|CDD|205207 pfam13026, DUF3887, Protein of unknown function (DUF3887). This
family of lipoproteins is functionally uncharacterized.
This family of proteins is found in bacteria. Proteins
in this family are typically between 128 and 167 amino
acids in length. The proteins in this family contain an
N-terminal lipid attachment site.
Length = 101
Score = 27.2 bits (60), Expect = 2.9
Identities = 13/43 (30%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 132 EKSVLNAADKLVFMVSENQYKGVLDGSVPVLVQPVNWMETAEE 174
+++V +A+++V MV+E Y+ V + + + +NW E A+E
Sbjct: 4 KENVEQSAEEIVTMVNEKVYRDVHNKFDEKMNKALNW-EEAKE 45
>gnl|CDD|212132 cd11667, GH38N_Man2A2, N-terminal catalytic domain of Golgi
alpha-mannosidase IIx, and similar proteins; glycoside
hydrolase family 38 (GH38). This subfamily is
represented by human alpha-mannosidase 2x (MX, also
known as mannosyl-oligosaccharide 1,3- 1,6-alpha
mannosidase, EC 3.2.1.114, Man2A2). MX is enzymatically
and functionally very similar to GMII (found in another
subfamily), and as an isoenzyme of GMII. It is thought
to also function in the N-glycosylation pathway. MX
specifically hydrolyzes the same oligosaccharide
substrate as does MII. It specifically removes two
mannosyl residues from GlcNAc(Man)5(GlcNAc)2 to yield
GlcNAc(Man)3(GlcNAc)2(GlcNAc, N-acetylglucosmine).
Length = 344
Score = 27.6 bits (61), Expect = 3.7
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 74 PTSVASANEAAVAGIPLDQYRDTSQI 99
P ++ AN A A + LDQYR S++
Sbjct: 224 PRAITEANVAERAQLLLDQYRKKSKL 249
>gnl|CDD|219692 pfam08002, DUF1697, Protein of unknown function (DUF1697). This
family contains many hypothetical bacterial proteins.
Length = 136
Score = 27.1 bits (61), Expect = 4.0
Identities = 23/84 (27%), Positives = 36/84 (42%), Gaps = 10/84 (11%)
Query: 33 VDTYITSGMVVGLGSGQASAMAIEYMGRQLRAGALKDVIG--IPTSVASANE--AAVAGI 88
V TYI SG VV S + +E ++ AL++ G +P V SA E A VA
Sbjct: 35 VRTYIQSGNVV-FESSERDEAELE---AKIEK-ALEERFGFEVPVLVRSAEELRAIVAAN 89
Query: 89 P-LDQYRDTSQIDFAFDDADIIEE 111
P + + +++ F +
Sbjct: 90 PFPWESAEPNRLHVLFLSEPPDAD 113
>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 = 27.9 bits (62), Expect = 4.2
Identities = 31/125 (24%), Positives = 49/125 (39%), Gaps = 29/125 (23%)
Query: 27 RAAKHTVD---TYITSGMVVGLGSGQASAMAIEYMGRQLRAGALKDVIGIPTSVASANEA 83
+ AKH Y + M VG+G+GQ S R G+ K I + EA
Sbjct: 404 KVAKHVKSNAIVYAKNNMTVGVGAGQMS-----------RVGSAK--IAGIKADDEGLEA 450
Query: 84 AVAGIPLDQYRDTSQIDFAFDDADIIEEGTLVAVIGRQQPKGDESIIQEKSVLNAADKL- 142
+ + D + F F D +EE + QP G ++++ + AAD+
Sbjct: 451 KGSSLASDAF-------FPFRDG--VEEAAAAGITCIIQPGGS---MRDEDSIWAADEHG 498
Query: 143 VFMVS 147
+ MV
Sbjct: 499 IVMVF 503
>gnl|CDD|225263 COG2390, DeoR, Transcriptional regulator, contains sigma
factor-related N-terminal domain [Transcription].
Length = 321
Score = 26.8 bits (60), Expect = 8.1
Identities = 8/35 (22%), Positives = 19/35 (54%)
Query: 27 RAAKHTVDTYITSGMVVGLGSGQASAMAIEYMGRQ 61
RAA +++ + G V+G+G G+ + ++ +
Sbjct: 102 RAAAQYLESLLKPGDVIGVGWGRTLSAVVDNLPPA 136
>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 = 26.6 bits (59), Expect = 8.3
Identities = 11/28 (39%), Positives = 15/28 (53%), Gaps = 3/28 (10%)
Query: 27 RAAKHTVDT---YITSGMVVGLGSGQAS 51
+ KH Y +GM VG+G+GQ S
Sbjct: 276 KVVKHVKSNAIVYAKNGMTVGIGAGQQS 303
>gnl|CDD|217959 pfam04198, Sugar-bind, Putative sugar-binding domain. This
probable domain is found in bacterial transcriptional
regulators such as DeoR and SorC. These proteins have
an amino-terminal helix-turn-helix pfam00325 that binds
to DNA. This domain is probably the ligand regulator
binding region. SorC is regulated by sorbose and other
members of this family are likely to be regulated by
other sugar substrates.
Length = 255
Score = 26.4 bits (59), Expect = 9.3
Identities = 14/48 (29%), Positives = 25/48 (52%), Gaps = 4/48 (8%)
Query: 27 RAAKHTVDTYITSGMVVGLGSGQASAMAIEYMGRQLRAGALKDVIGIP 74
RAA + + + G VVG+G G+ + E + + +L+DV +P
Sbjct: 40 RAAAQYLSSLLKDGDVVGVGWGRTLSAVAEALTPK----SLRDVKFVP 83
>gnl|CDD|166206 PLN02565, PLN02565, cysteine synthase.
Length = 322
Score = 26.4 bits (58), Expect = 9.4
Identities = 15/32 (46%), Positives = 20/32 (62%)
Query: 40 GMVVGLGSGQASAMAIEYMGRQLRAGALKDVI 71
G++VG+ SG A+A AI+ R AG L VI
Sbjct: 263 GLLVGISSGAAAAAAIKIAKRPENAGKLIVVI 294
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
0.315 0.131 0.356
Gapped
Lambda K H
0.267 0.0840 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,749,826
Number of extensions: 923657
Number of successful extensions: 766
Number of sequences better than 10.0: 1
Number of HSP's gapped: 756
Number of HSP's successfully gapped: 46
Length of query: 193
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 101
Effective length of database: 6,857,034
Effective search space: 692560434
Effective search space used: 692560434
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: 42 (22.0 bits)
S2: 56 (25.1 bits)