RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 031643
(156 letters)
>gnl|CDD|215466 PLN02865, PLN02865, galactokinase.
Length = 423
Score = 239 bits (612), Expect = 6e-79
Identities = 104/152 (68%), Positives = 122/152 (80%), Gaps = 10/152 (6%)
Query: 1 MRNKVSEMSGRDAEVVRVVVSPYRICPLGAHIDHQGGTVSAMTINKGILLGFVPSGDTEV 60
+R +V+ MSGR++ VRVVVSPYRICPLGAHIDHQGGTVSAMTINKGILLGFVPSGD EV
Sbjct: 15 IRERVAAMSGRNSGEVRVVVSPYRICPLGAHIDHQGGTVSAMTINKGILLGFVPSGDPEV 74
Query: 61 VLRSGQFDGEVRFSIDEIQQPRNSVKKHHVVHASDSAKIKEECKWGNYARGALYALQSRG 120
+LRS QF+GEVRF +DEIQ P + S+ KEE WG+YARGA+YALQSRG
Sbjct: 75 LLRSAQFEGEVRFRVDEIQHPIA----------NVSSDSKEESNWGDYARGAVYALQSRG 124
Query: 121 NNLTQGIIGYICGSDNLDSSGLSSSAAVSMSF 152
+ L+QGI GYI GS+ LDSSGLSSSAAV +++
Sbjct: 125 HALSQGITGYISGSEGLDSSGLSSSAAVGVAY 156
>gnl|CDD|223231 COG0153, GalK, Galactokinase [Carbohydrate transport and
metabolism].
Length = 390
Score = 63.5 bits (155), Expect = 1e-12
Identities = 42/137 (30%), Positives = 54/137 (39%), Gaps = 21/137 (15%)
Query: 12 DAEVVRVVVSPYRICPLGAHIDHQGGTVSAMTINKGILLGFVPSGDTEVVLRSGQFDGEV 71
E +P R+ +G H D+ GG V IN G + D +V L S F
Sbjct: 19 YVEPTVTAFAPGRVNLIGEHTDYNGGFVLPCAINYGTYVAVAKRDDGKVRLYSANFG--- 75
Query: 72 RFSIDEIQQPRNSVKKHHVVHASDSAKIKEECKWGNYARGALYALQSRGNNLTQGIIGYI 131
D AK K + W NY +G + ALQ RG T G+ I
Sbjct: 76 -------------NAGDIFFLLLDIAKEKID-DWANYVKGVIKALQKRGYAFT-GLDIVI 120
Query: 132 CGSDNL-DSSGLSSSAA 147
G N+ +GLSSSAA
Sbjct: 121 SG--NIPIGAGLSSSAA 135
>gnl|CDD|235407 PRK05322, PRK05322, galactokinase; Provisional.
Length = 387
Score = 63.3 bits (155), Expect = 2e-12
Identities = 46/153 (30%), Positives = 67/153 (43%), Gaps = 26/153 (16%)
Query: 1 MRNKVSEMSGRDAEVVRVVVSPYRICPLGAHIDHQGGTVSAMTINKGILLGFVPSGDTEV 60
++ K +E+ G +AE V SP RI +G H D+ GG V I G D +V
Sbjct: 6 LKKKFAEVFGEEAE--DVFFSPGRINLIGEHTDYNGGHVFPAAITLGTYGAARKRDDKKV 63
Query: 61 VLRSGQFD--GEVRFSIDEIQQPRNSVKKHHVVHASDSAKIKEECKWGNYARGALYALQS 118
L S F+ G + F +D++ S K W NY +G L LQ
Sbjct: 64 RLYSANFEDLGIIEFDLDDL-----SFDKED--------------DWANYPKGVLKFLQE 104
Query: 119 RGNNLTQGIIGYICGSDNL-DSSGLSSSAAVSM 150
G + G I G N+ + +GLSSSA++ +
Sbjct: 105 AGYKIDHGFDILIYG--NIPNGAGLSSSASIEL 135
>gnl|CDD|232841 TIGR00131, gal_kin, galactokinase. Galactokinase is a member of
the GHMP kinases (Galactokinase, Homoserine kinase,
Mevalonate kinase, Phosphomevalonate kinase) and shares
with them an amino-terminal domain probably related to
ATP binding.The galactokinases found by This model are
divided into two sets. Prokaryotic forms are generally
shorter. The eukaryotic forms are longer because of
additional central regions and in some cases are known
to be bifunctional, with regulatory activities that are
independent of galactokinase activity [Energy
metabolism, Sugars].
Length = 386
Score = 55.6 bits (134), Expect = 7e-10
Identities = 35/132 (26%), Positives = 50/132 (37%), Gaps = 20/132 (15%)
Query: 18 VVVSPYRICPLGAHIDHQGGTVSAMTINKGILLGFVPSGDTEVVLRSGQFDGEV-RFSID 76
+P R+ +G H D+ G+V I+ G L D V + D + S+D
Sbjct: 19 TARAPGRVNLIGEHTDYNDGSVLPCAIDFGTLCAVAVRDDKNVRIYLANADNKFAERSLD 78
Query: 77 EIQQPRNSVKKHHVVHASDSAKIKEECKWGNYARGALYALQSRGNNLTQGIIGYICGSDN 136
P + E W NY +G L+ Q R N+ G +C +
Sbjct: 79 L---PLDG---------------SEVSDWANYFKGVLHVAQERFNSFPLG-ADIVCSGNV 119
Query: 137 LDSSGLSSSAAV 148
SGLSSSAA
Sbjct: 120 PTGSGLSSSAAF 131
>gnl|CDD|235163 PRK03817, PRK03817, galactokinase; Provisional.
Length = 351
Score = 50.8 bits (122), Expect = 3e-08
Identities = 35/134 (26%), Positives = 57/134 (42%), Gaps = 27/134 (20%)
Query: 18 VVVSPYRICPLGAHIDHQGGTVSAMTINKGILLGFVPSGDTEVVLRSGQFDGEVRFSIDE 77
V SP R+ +G H D+ G V IN L S + + S F+ E F +D
Sbjct: 2 KVKSPGRVNLIGEHTDYNDGYVLPFAINLYTFLEIEKSE--KFIFYSENFNEEKTFELD- 58
Query: 78 IQQPRNSVKKHHVVHASDSAKIKEECKWGNYARGALYALQSRGNNLTQGIIGYICGSDNL 137
K+++ W +Y +G ++ L+ RG + G+ G + NL
Sbjct: 59 --------------------KLEKLNSWADYIKGVIWVLEKRGYEV-GGVKGKVSS--NL 95
Query: 138 D-SSGLSSSAAVSM 150
+GLSSSA++ +
Sbjct: 96 PIGAGLSSSASLEV 109
>gnl|CDD|179937 PRK05101, PRK05101, galactokinase; Provisional.
Length = 382
Score = 44.5 bits (106), Expect = 6e-06
Identities = 34/132 (25%), Positives = 53/132 (40%), Gaps = 23/132 (17%)
Query: 18 VVVSPYRICPLGAHIDHQGGTVSAMTINKGILLGFVPSGDTEVVLRSGQFDGEV-RFSID 76
+ +P R+ +G H D+ G V I+ ++ D V + + +D + FS+D
Sbjct: 22 TIQAPGRVNLIGEHTDYNDGFVLPCAIDYQTVISCAKRDDRIVRVIAADYDNQQDEFSLD 81
Query: 77 EIQQPRNSVKKHHVVHASDSAKIKEECKWGNYARGALYALQSRGNNLTQGIIGYICGSDN 136
P E +W NY RG + LQ R + G I G N
Sbjct: 82 APIVPH------------------PEQQWANYVRGVVKHLQERNPDF-GGADLVISG--N 120
Query: 137 L-DSSGLSSSAA 147
+ +GLSSSA+
Sbjct: 121 VPQGAGLSSSAS 132
>gnl|CDD|179063 PRK00555, PRK00555, galactokinase; Provisional.
Length = 363
Score = 41.0 bits (96), Expect = 1e-04
Identities = 32/128 (25%), Positives = 50/128 (39%), Gaps = 22/128 (17%)
Query: 21 SPYRICPLGAHIDHQGGTVSAMTINKGILLGFVPSGDTEVVLRSGQFDGEVRFSIDEIQQ 80
+P RI +G H D+ G + + + ++ F P + S + DG R +D
Sbjct: 7 APGRINLIGEHTDYNLGFALPIALPQRTVVTFTPEHTDAITASSDRADGSARIPLDTTPG 66
Query: 81 PRNSVKKHHVVHASDSAKIKEECKWGNYARGALYALQSRGNNLTQGIIGYICGSDNLDSS 140
W YA G ++AL+ G+ + G + SD S
Sbjct: 67 QVTG--------------------WAAYAAGVIWALRGAGHPVPGGAMS--ITSDVEIGS 104
Query: 141 GLSSSAAV 148
GLSSSAA+
Sbjct: 105 GLSSSAAL 112
>gnl|CDD|204502 pfam10509, GalKase_gal_bdg, Galactokinase galactose-binding
signature. This is the highly conserved galactokinase
signature sequence which appears to be present in all
galactokinases irrespective of how many other ATP
binding sites, etc that they carry. The function of
this domain appears to be to bind galactose, and the
domain is normally at the N-terminus of the enzymes,
EC:2.7.1.6. This domain is associated with the families
GHMP_kinases_C, pfam08544 and GHMP_kinases_N,
pfam00288.
Length = 52
Score = 32.5 bits (75), Expect = 0.009
Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 2/46 (4%)
Query: 10 GRDAEVVRVVVSPYRICPLGAHIDHQGGTVSAMTINKGILLGFVPS 55
G + E V +P R+ +G H D+ GG V IN +
Sbjct: 9 GVEPEGV--ASAPGRVNLIGEHTDYNGGFVLPAAINLDTYVAVSKR 52
>gnl|CDD|215285 PLN02521, PLN02521, galactokinase.
Length = 497
Score = 33.9 bits (78), Expect = 0.022
Identities = 40/153 (26%), Positives = 59/153 (38%), Gaps = 54/153 (35%)
Query: 21 SPYRICPLGAHIDHQGGTVSAMTINKGILLGFVPSGDTEVVLRSGQFDGEVR-------- 72
SP R+ +G HID++G +V M I + DT V +R + ++R
Sbjct: 53 SPGRVNLIGEHIDYEGYSVLPMAIRQ----------DTIVAIRRAEGSKKLRIANVNDKY 102
Query: 73 ----FSIDEIQQPRNSVKKHHVVHASDSAKIKEECKWGNYA----RGALYALQSRGNNLT 124
F D Q+ + H WGNY +G L+S+G ++
Sbjct: 103 TTCTFPADPDQEV--DLANHK---------------WGNYFICGYKGVFEFLKSKGVDV- 144
Query: 125 QGIIGYICGSDNL------DSSGLSSSAAVSMS 151
G G D + SGLSSSAA+ S
Sbjct: 145 ----GPPVGLDVVVDGTVPTGSGLSSSAALVCS 173
>gnl|CDD|181437 PRK08470, PRK08470, adenylosuccinate lyase; Provisional.
Length = 442
Score = 32.4 bits (74), Expect = 0.065
Identities = 18/62 (29%), Positives = 31/62 (50%), Gaps = 9/62 (14%)
Query: 50 LGFVPSGDTEVVLRSGQFDGEVRFSIDEIQQPRNSVKKHHVVH--ASDSAKIKEECKWGN 107
LG +P D E + ++ +FD IDEI++ KH ++ S S + EE ++ +
Sbjct: 37 LGLIPDSDCEKICKNAKFDIA---RIDEIEK----TTKHDLIAFLTSVSESLGEESRFVH 89
Query: 108 YA 109
Y
Sbjct: 90 YG 91
>gnl|CDD|177574 PHA03278, PHA03278, envelope glycoprotein K; Provisional.
Length = 347
Score = 28.9 bits (65), Expect = 0.94
Identities = 14/67 (20%), Positives = 23/67 (34%), Gaps = 6/67 (8%)
Query: 88 HHVVHAS---DSAKIKEECKWGNYARGALYALQSRGNNLTQGIIGYICGSDNLDSS---G 141
H V+A + W Y +Y N L IC +D ++ + G
Sbjct: 35 HGCVYAVLPLGELSDGKNFTWEAYNSTLIYVPLGNKNALDFSGFDDICRTDLVNRTAIGG 94
Query: 142 LSSSAAV 148
L+ A+
Sbjct: 95 LAGDEAL 101
>gnl|CDD|237304 PRK13206, ureC, urease subunit alpha; Reviewed.
Length = 573
Score = 27.8 bits (62), Expect = 2.9
Identities = 14/29 (48%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 12 DAEVVRVVVSPYRICPLGAH-IDHQGGTV 39
D R V+ Y ICP AH IDH+ G+V
Sbjct: 402 DNNRARRYVAKYTICPAVAHGIDHEIGSV 430
>gnl|CDD|131387 TIGR02334, prpF, probable AcnD-accessory protein PrpF. The
2-methylcitrate cycle is one of at least five
degradation pathways for propionate via propionyl-CoA.
Degradation of propionate toward pyruvate consumes
oxaloacetate and releases succinate. Oxidation of
succinate back into oxaloacetate by the TCA cycle makes
the 2-methylcitrate pathway a cycle. This family
consists of PrpF, an incompletely characterized protein
that appears to be an essential accessory protein for
the Fe/S-dependent 2-methylisocitrate dehydratase AcnD
(TIGR02333). This protein is related to but distinct
from FldA (part of Pfam family pfam04303), a putative
fluorene degradation protein of Sphingomonas sp. LB126
[Energy metabolism, Fermentation].
Length = 390
Score = 27.5 bits (61), Expect = 3.1
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 3/33 (9%)
Query: 9 SGRDAEVVRVVVSPYRICPLGAHIDHQGGTVSA 41
RD ++RV+ SP P G ID GG S+
Sbjct: 35 EARDKLLLRVIGSPD---PYGKQIDGMGGATSS 64
>gnl|CDD|99858 cd06105, ScCit1-2_like, Saccharomyces cerevisiae (Sc) citrate
synthases Cit1-2_like. Citrate synthases (CS) catalyzes
the condensation of acetyl coenzyme A (AcCoA) with
oxaloacetate (OAA) to form citrate and coenzyme A (CoA),
the first step in the citric acid cycle (TCA or Krebs
cycle). Some CS proteins function as 2-methylcitrate
synthase (2MCS). 2MCS catalyzes the condensation of
propionyl-coenzyme A (PrCoA) and OAA to form
2-methylcitrate and CoA during propionate metabolism.
The overall CS reaction is thought to proceed through
three partial reactions and involves both closed and
open conformational forms of the enzyme: a) the
carbanion or equivalent is generated from AcCoA by base
abstraction of a proton, b) the nucleophilic attack of
this carbanion on OAA to generate citryl-CoA, and c) the
hydrolysis of citryl-CoA to produce citrate and CoA.
There are two types of CSs: type I CS and type II CSs.
Type I CSs are found in eukarya, gram-positive bacteria,
archaea, and in some gram-negative bacteria and are
homodimers with both subunits participating in the
active site. Type II CSs are unique to gram-negative
bacteria and are homohexamers of identical subunits
(approximated as a trimer of dimers). ScCit1 is a
nuclear-encoded mitochondrial CS with highly specificity
for AcCoA. In addition to its CS function, ScCit1 plays
a part in the construction of the TCA cycle metabolon.
Yeast cells deleted for Cit1 are hyper-susceptible to
apoptosis induced by heat and aging stress. ScCit2 is a
peroxisomal CS involved in the glyoxylate cycle; in
addition to having activity with AcCoA, it may have
activity with PrCoA. Chicken and pig heart CS, two
Arabidopsis thaliana (Ath) CSs, CSY4 and -5, and
Aspergillus niger (An) CS also belong to this group. Ath
CSY4 has a mitochondrial targeting sequence; AthCSY5 has
no identifiable targeting sequence. AnCS encoded by the
citA gene has both an N-terminal mitochondrial import
signal and a C-terminal peroxisiomal target sequence; it
is not known if both these signals are functional in
vivo. This group contains proteins which functions
exclusively as either a CS or a 2MCS, as well as those
with relaxed specificity which have dual functions as
both a CS and a 2MCS.
Length = 427
Score = 27.3 bits (61), Expect = 4.2
Identities = 9/13 (69%), Positives = 10/13 (76%)
Query: 31 HIDHQGGTVSAMT 43
H DH+GG VSA T
Sbjct: 229 HSDHEGGNVSAHT 241
>gnl|CDD|99859 cd06106, ScCit3_like, Saccharomyces cerevisiae (Sc) 2-methylcitrate
synthase Cit3-like. 2-methylcitrate synthase (2MCS)
catalyzes the condensation of propionyl-coenzyme A
(PrCoA) and oxaloacetate (OAA) to form 2-methylcitrate
and CoA. Citrate synthase (CS) catalyzes the
condensation of acetyl coenzyme A (AcCoA) with OAA to
form citrate and CoA, the first step in the citric acid
cycle (TCA or Krebs cycle). The overall CS reaction is
thought to proceed through three partial reactions and
involves both closed and open conformational forms of
the enzyme: a) the carbanion or equivalent is generated
from AcCoA by base abstraction of a proton, b) the
nucleophilic attack of this carbanion on OAA to generate
citryl-CoA, and c) the hydrolysis of citryl-CoA to
produce citrate and CoA. There are two types of CSs:
type I CS and type II CSs. Type I CSs are found in
eukarya, gram-positive bacteria, archaea, and in some
gram-negative bacteria and are homodimers with both
subunits participating in the active site. Type II CSs
are unique to gram-negative bacteria and are
homohexamers of identical subunits (approximated as a
trimer of dimers). ScCit3 is mitochondrial and functions
in the metabolism of PrCoA; it is a dual specificity CS
and 2MCS, having similar catalytic efficiency with both
AcCoA and PrCoA. The pattern of expression of the ScCIT3
gene follows that of the major mitochondrial CS gene
(CIT1, not included in this group) and its expression is
increased in the presence of a CIT1 deletion. This group
also contains Aspergillus nidulans 2MCS; a deletion of
the gene encoding this protein results in a strain
unable to grow on propionate. This group contains
proteins which functions exclusively as either a CS or a
2MCS, as well as those with relaxed specificity which
have dual functions as both a CS and a 2MCS.
Length = 428
Score = 27.1 bits (60), Expect = 4.8
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 28 LGAHIDHQGGTVSAMT 43
+ H DH+GG VSA T
Sbjct: 228 IALHGDHEGGNVSAHT 243
>gnl|CDD|223782 COG0710, AroD, 3-dehydroquinate dehydratase [Amino acid transport
and metabolism].
Length = 231
Score = 26.2 bits (58), Expect = 6.8
Identities = 5/22 (22%), Positives = 13/22 (59%)
Query: 1 MRNKVSEMSGRDAEVVRVVVSP 22
+ ++ +M A++V++ V P
Sbjct: 135 IIERLDKMESLGADIVKIAVMP 156
>gnl|CDD|233571 TIGR01778, TonB-copper, TonB-dependent copper receptor. This model
represents a family of proteobacterial TonB-dependent
outer membrane receptor/transporters which bind and
translocate copper ions. Two characterized members of
this family exist, outer membrane protein C (OprC) from
Pseudomonas aeruginosa and NosA from Pseudomonas
stutzeri which is responsible for providing copper for
the copper-containing N2O reducatse [Transport and
binding proteins, Cations and iron carrying compounds,
Transport and binding proteins, Porins].
Length = 636
Score = 26.4 bits (58), Expect = 9.3
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 45 NKGILLGFVPSGDTEVVLRSGQFDGEVRFS 74
N + LG+ P DT V L G GE R++
Sbjct: 172 NGNLALGWTPDADTVVELSHGASSGEARYA 201
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
0.317 0.133 0.388
Gapped
Lambda K H
0.267 0.0836 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,630,325
Number of extensions: 669143
Number of successful extensions: 562
Number of sequences better than 10.0: 1
Number of HSP's gapped: 550
Number of HSP's successfully gapped: 29
Length of query: 156
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 67
Effective length of database: 6,990,096
Effective search space: 468336432
Effective search space used: 468336432
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 (21.7 bits)
S2: 55 (24.8 bits)