RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15537
(80 letters)
>gnl|CDD|202746 pfam03727, Hexokinase_2, Hexokinase. Hexokinase (EC:2.7.1.1)
contains two structurally similar domains represented by
this family and pfam00349. Some members of the family
have two copies of each of these domains.
Length = 238
Score = 67.7 bits (166), Expect = 1e-15
Identities = 25/60 (41%), Positives = 37/60 (61%)
Query: 12 RRIDRDDITIAVDGSLYKYHPRLKHWLQKYIQLLVPNKTFRLLLAEDGSGKGAGLASAIA 71
R + +T+ VDGS+YK +P K L + ++ L P+ + AEDGSGKGA L +A+A
Sbjct: 179 RGYEHLKVTVGVDGSVYKLYPGFKERLAETLRDLAPDCDVSFIPAEDGSGKGAALVAAVA 238
>gnl|CDD|240270 PTZ00107, PTZ00107, hexokinase; Provisional.
Length = 464
Score = 50.8 bits (122), Expect = 4e-09
Identities = 23/68 (33%), Positives = 37/68 (54%), Gaps = 3/68 (4%)
Query: 7 TAVLVR-RIDRDDITIAVDGSLYKYHPRLKHWLQKYIQLLVPNKT--FRLLLAEDGSGKG 63
A + R + T+A+DGS+Y +P + LQ+YI ++ LA+DGSGKG
Sbjct: 393 AAPAKKTRTVQGKATVAIDGSVYVKNPWFRRLLQEYINSILGPDAGNVVFYLADDGSGKG 452
Query: 64 AGLASAIA 71
A + +A+
Sbjct: 453 AAIIAAMV 460
>gnl|CDD|227359 COG5026, COG5026, Hexokinase [Carbohydrate transport and
metabolism].
Length = 466
Score = 38.5 bits (90), Expect = 9e-05
Identities = 20/74 (27%), Positives = 36/74 (48%), Gaps = 7/74 (9%)
Query: 7 TAVLVRRID-----RDDITIAVDGSLYKYHPRLKHWLQKYIQLLV--PNKTFRLLLAEDG 59
AV + I + DGS+ + +P + L++ ++ L+ + ++ AEDG
Sbjct: 388 AAVPIAAIVIKTGAYKAYHVGADGSVIERYPGFRSMLREALKALLGEEGEKIKIKPAEDG 447
Query: 60 SGKGAGLASAIALK 73
SG GA L + +A K
Sbjct: 448 SGLGAALCALLAQK 461
>gnl|CDD|178502 PLN02914, PLN02914, hexokinase.
Length = 490
Score = 34.1 bits (78), Expect = 0.003
Identities = 17/52 (32%), Positives = 32/52 (61%), Gaps = 3/52 (5%)
Query: 21 IAVDGSLYKYHPRLKHWLQKYI-QLLVPNKTFRLLL--AEDGSGKGAGLASA 69
+A+DG LY+ +P+ + ++Q + +LL + + + +DGSG GA L +A
Sbjct: 434 VAMDGGLYEKYPQYRRYMQDAVTELLGLELSKNIAIEHTKDGSGIGAALLAA 485
>gnl|CDD|215226 PLN02405, PLN02405, hexokinase.
Length = 497
Score = 30.6 bits (69), Expect = 0.053
Identities = 18/78 (23%), Positives = 41/78 (52%), Gaps = 11/78 (14%)
Query: 3 TAQGTAVLVRRIDRDDI--------TIAVDGSLYKYHPRLKHWLQKYIQLLV---PNKTF 51
+A G +++++ RD + IA+DG L++++ ++ ++ L+ +++
Sbjct: 410 SAAGIYGILKKLGRDTVKDGEKQKSVIAMDGGLFEHYTEFSKCMESTLKELLGEEVSESI 469
Query: 52 RLLLAEDGSGKGAGLASA 69
+ + DGSG GA L +A
Sbjct: 470 EVEHSNDGSGIGAALLAA 487
>gnl|CDD|217715 pfam03759, PRONE, PRONE (Plant-specific Rop nucleotide
exchanger). This is a functional guanine exchange
factor (GEF) of plant Rho GTPase.
Length = 360
Score = 28.9 bits (65), Expect = 0.20
Identities = 12/21 (57%), Positives = 17/21 (80%)
Query: 52 RLLLAEDGSGKGAGLASAIAL 72
+LLL ED SG G G+++A+AL
Sbjct: 14 KLLLGEDMSGGGKGVSTALAL 34
>gnl|CDD|173808 cd07482, Peptidases_S8_Lantibiotic_specific_protease, Peptidase
S8 family domain in Lantiobiotic
(lanthionine-containing antibiotics) specific
proteases. Lantiobiotic (lanthionine-containing
antibiotics) specific proteases are very similar in
structure to serine proteases. Lantibiotics are
ribosomally synthesised antimicrobial agents derived
from ribosomally synthesised peptides with
antimicrobial activities against Gram-positive
bacteria. The proteases that cleave the N-terminal
leader peptides from lantiobiotics include: epiP,
nsuP, mutP, and nisP. EpiP, from Staphylococcus, is
thought to cleave matured epidermin. NsuP, a
dehydratase from Streptococcus and NisP, a
membrane-anchored subtilisin-like serine protease from
Lactococcus cleave nisin. MutP is highly similar to
epiP and nisP and is thought to process the prepeptide
mutacin III of S. mutans. Members of the peptidases S8
(subtilisin and kexin) and S53 (sedolisin) clan include
endopeptidases and exopeptidases. The S8 family has an
Asp/His/Ser catalytic triad similar to that found in
trypsin-like proteases, but do not share their
three-dimensional structure and are not homologous to
trypsin. Serine acts as a nucleophile, aspartate as an
electrophile, and histidine as a base. The S53 family
contains a catalytic triad Glu/Asp/Ser with an
additional acidic residue Asp in the oxyanion hole,
similar to that of subtilisin. The serine residue here
is the nucleophilic equivalent of the serine residue in
the S8 family, while glutamic acid has the same role
here as the histidine base. However, the aspartic
acid residue that acts as an electrophile is quite
different. In S53 the it follows glutamic acid, while
in S8 it precedes histidine. The stability of these
enzymes may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. There is a great diversity in the
characteristics of their members: some contain
disulfide bonds, some are intracellular while others
are extracellular, some function at extreme
temperatures, and others at high or low pH values.
Length = 294
Score = 28.1 bits (63), Expect = 0.35
Identities = 19/63 (30%), Positives = 27/63 (42%), Gaps = 10/63 (15%)
Query: 19 ITIAV-DGSLYKYHPRLKHWLQKYIQLLVPNKTFRLLLA---------EDGSGKGAGLAS 68
+T+AV D + HP LK+ + Y + LVP + A D G G +A
Sbjct: 2 VTVAVIDSGIDPDHPDLKNSISSYSKNLVPKGGYDGKEAGETGDINDIVDKLGHGTAVAG 61
Query: 69 AIA 71
IA
Sbjct: 62 QIA 64
>gnl|CDD|236816 PRK10999, malF, maltose transporter membrane protein; Provisional.
Length = 520
Score = 28.0 bits (63), Expect = 0.44
Identities = 15/31 (48%), Positives = 20/31 (64%), Gaps = 2/31 (6%)
Query: 41 YIQLLVPNKTFRLLLAEDGSGKGAGLASAIA 71
Y LLV + T+R+ E G G+ GLA+AIA
Sbjct: 469 YTDLLV-SYTYRIAF-EGGGGQDFGLAAAIA 497
>gnl|CDD|238968 cd02010, TPP_ALS, Thiamine pyrophosphate (TPP) family,
Acetolactate synthase (ALS) subfamily, TPP-binding
module; composed of proteins similar to Klebsiella
pneumoniae ALS, a catabolic enzyme required for
butanediol fermentation. ALS catalyzes the conversion
of 2 molecules of pyruvate to acetolactate and carbon
dioxide. ALS does not contain FAD, and requires TPP and
a divalent metal cation for activity.
Length = 177
Score = 26.9 bits (60), Expect = 1.0
Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 9/64 (14%)
Query: 11 VRRIDRDDITIAVDGSLYKYHPRLKHWLQKYIQLLVPNKTFRLLLAEDGSGKGAGLASAI 70
+R + DD + +D +K W+ +Y + PN L++ + G L AI
Sbjct: 8 LRAVMGDDDIVLLDVGAHKI------WMARYYRTYAPNT---CLISNGLATMGVALPGAI 58
Query: 71 ALKL 74
KL
Sbjct: 59 GAKL 62
>gnl|CDD|235434 PRK05370, PRK05370, argininosuccinate synthase; Validated.
Length = 447
Score = 26.9 bits (60), Expect = 1.0
Identities = 14/32 (43%), Positives = 16/32 (50%), Gaps = 4/32 (12%)
Query: 2 TTAQGTAV----LVRRIDRDDITIAVDGSLYK 29
TT G AV LV + D + I DGS YK
Sbjct: 102 TTPLGRAVTGTMLVAAMKEDGVNIWGDGSTYK 133
>gnl|CDD|236327 PRK08661, PRK08661, prolyl-tRNA synthetase; Provisional.
Length = 477
Score = 26.3 bits (59), Expect = 1.8
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 4 AQGTAVLVRRIDRDDITIAVDG 25
T VLVRR + T+ +D
Sbjct: 357 ENNTVVLVRRDTLEKETVPLDE 378
>gnl|CDD|212098 cd10786, GH38N_AMII_like, N-terminal catalytic domain of class II
alpha-mannosidases and similar proteins; glycoside
hydrolase family 38 (GH38). Alpha-mannosidases (EC
3.2.1.24) are extensively found in eukaryotes and play
important roles in the processing of newly formed
N-glycans and in degradation of mature glycoproteins.
A deficiency of this enzyme causes the lysosomal
storage disease alpha-mannosidosis. Many bacterial and
archaeal species also possess putative
alpha-mannosidases, but their activity and specificity
is largely unknown. Based on different functional
characteristics and sequence homology,
alpha-mannosidases have been organized into two classes
(class I, belonging to glycoside hydrolase family 47,
and class II, belonging to glycoside hydrolase family
38). Members of this family corresponds to class II
alpha-mannosidases (alphaMII), which contain
intermediate Golgi alpha-mannosidases II, acidic
lysosomal alpha-mannosidases, animal sperm and
epididymal alpha -mannosidases, neutral ER/cytosolic
alpha-mannosidases, and some putative prokaryotic
alpha-mannosidases. AlphaMII possess a-1,3, a-1,6, and
a-1,2 hydrolytic activity, and catalyzes the
degradation of N-linked oligosaccharides. The
N-terminal catalytic domain of alphaMII adopts a
structure consisting of parallel 7-stranded beta/alpha
barrel. Members in this family are retaining glycosyl
hydrolases of family GH38 that employs a two-step
mechanism involving the formation of a covalent
glycosyl enzyme complex. Two carboxylic acids
positioned within the active site act in concert: one
as a catalytic nucleophile and the other as a general
acid/base catalyst.
Length = 251
Score = 25.8 bits (57), Expect = 2.3
Identities = 9/29 (31%), Positives = 14/29 (48%)
Query: 29 KYHPRLKHWLQKYIQLLVPNKTFRLLLAE 57
Y K L K ++LL N ++ L+ E
Sbjct: 21 YYQINFKAILDKALRLLDANPEYKFLIEE 49
>gnl|CDD|227490 COG5161, SFT1, Pre-mRNA cleavage and polyadenylation specificity
factor [RNA processing and modification].
Length = 1319
Score = 25.7 bits (56), Expect = 2.9
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 5 QGTAVLVRRIDRDDITIAV 23
QG V+VR+IDR I V
Sbjct: 1068 QGQKVMVRKIDRSSGIIPV 1086
>gnl|CDD|181933 PRK09532, PRK09532, DNA polymerase III subunit alpha; Reviewed.
Length = 874
Score = 25.9 bits (57), Expect = 2.9
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 28 YKYHPRLKHWLQKYIQLLVPNKTF 51
Y PR++ WL I++ NKTF
Sbjct: 496 YDNDPRVRRWLDMAIRIEGTNKTF 519
>gnl|CDD|215297 PLN02541, PLN02541, uracil phosphoribosyltransferase.
Length = 244
Score = 25.5 bits (56), Expect = 3.1
Identities = 12/29 (41%), Positives = 14/29 (48%)
Query: 31 HPRLKHWLQKYIQLLVPNKTFRLLLAEDG 59
HP +KHWL P FR +AE G
Sbjct: 39 HPLIKHWLSVLRNEQTPPPIFRSAMAELG 67
>gnl|CDD|139170 PRK12710, flgJ, flagellar rod assembly protein/muramidase FlgJ;
Provisional.
Length = 291
Score = 25.5 bits (55), Expect = 3.2
Identities = 11/39 (28%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 18 DITIAVDGSLYKYHPRLKHWLQKYIQLLVPNKTFRLLLA 56
D I ++ S KY P ++H Y+ L+ ++ +++ LA
Sbjct: 205 DTPIKINASFRKY-PSIEHSFHDYVSLIKGSERYQMALA 242
>gnl|CDD|182733 PRK10790, PRK10790, putative multidrug transporter
membrane\ATP-binding components; Provisional.
Length = 592
Score = 25.4 bits (56), Expect = 3.8
Identities = 19/56 (33%), Positives = 28/56 (50%), Gaps = 10/56 (17%)
Query: 13 RIDRDDITIAVDGSLYKYHPRLKHWLQKYIQLLVPNKTFRLLLAEDGSGKGAGLAS 68
RID D+++ A R + + + I L VP++ F L+ GSGK LAS
Sbjct: 340 RIDIDNVSFAY---------RDDNLVLQNINLSVPSRGFVALVGHTGSGKST-LAS 385
>gnl|CDD|221484 pfam12242, Eno-Rase_NADH_b, NAD(P)H binding domain of
trans-2-enoyl-CoA reductase. This family carries the
region of the enzyme trans-2-enoyl-CoA reductase,
EC:1.3.1.44, which binds NAD(P)H. The activity of the
enzyme was characterized in Euglena where an unusual
fatty acid synthesis path-way in the mitochondria
performs a malonyl-CoA independent synthesis of fatty
acids leading to accumulation of wax esters, which
serve as the sink for electrons stemming from
glycolytic ATP synthesis and pyruvate oxidation. The
full enzyme catalyzes the reduction of enoyl-CoA to
acyl-CoA. The binding site is conserved as GA/CSpGYG,
where p is any polar residue.
Length = 78
Score = 24.7 bits (54), Expect = 4.1
Identities = 11/18 (61%), Positives = 12/18 (66%)
Query: 59 GSGKGAGLASAIALKLGA 76
G+ G GLAS IAL GA
Sbjct: 46 GASSGYGLASRIALAFGA 63
>gnl|CDD|119262 pfam10742, DUF2555, Protein of unknown function (DUF2555). This
family is conserved in Cyanobacteria. The function is
not known.
Length = 57
Score = 23.8 bits (52), Expect = 6.0
Identities = 8/24 (33%), Positives = 12/24 (50%)
Query: 3 TAQGTAVLVRRIDRDDITIAVDGS 26
T + A L +R++ DD DG
Sbjct: 10 TEEDVAELAKRLEEDDYPNPFDGL 33
>gnl|CDD|212109 cd10797, GH57N_APU_like_1, N-terminal putative catalytic domain of
mainly uncharacterized prokaryotic proteins similar to
archaeal thermoactive amylopullulanases; glycoside
hydrolase family 57 (GH57). This subfamily of mainly
uncharacterized bacterial proteins, shows high sequence
homology to GH57 archaeal thermoactive amylopullulanases
(APU, E.C 3.2.1.1/41). Thermoactive APUs are type II
pullulanases with both pullulanolytic and amylolytic
activities. They have an acid pH optimum and the
presence of Ca2+ might increase their activity,
thermostability, and substrate affinity.
Length = 327
Score = 24.5 bits (54), Expect = 7.3
Identities = 13/51 (25%), Positives = 19/51 (37%), Gaps = 7/51 (13%)
Query: 8 AVLVRRIDRDDITIAVDGSLYKYHPRLKHW----LQKYIQLLVPNKTFRLL 54
A RR + IA DG Y +H + L +Q + P + L
Sbjct: 242 AFDDRRGGPQLVHIATDGETYGHH---HRFGDMALAYALQKIAPERGAELT 289
>gnl|CDD|215206 PLN02362, PLN02362, hexokinase.
Length = 509
Score = 24.5 bits (53), Expect = 8.3
Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 21 IAVDGSLYKYHPRLKHWLQKYIQLLVPNKTFR---LLLAEDGSGKGAGLASA 69
+AV+G LY + + +L + + ++ + L EDGSG G+ L +A
Sbjct: 445 VAVEGGLYTNYTMFREYLHEALNEILGEDVAQHVILKATEDGSGIGSALLAA 496
>gnl|CDD|185376 PRK15479, PRK15479, transcriptional regulatory protein TctD;
Provisional.
Length = 221
Score = 24.3 bits (53), Expect = 8.6
Identities = 8/29 (27%), Positives = 12/29 (41%), Gaps = 4/29 (13%)
Query: 31 HPRLKHWLQKYIQLLVPNKTFRLLLAEDG 59
+ L HWL+K + F + DG
Sbjct: 9 NRELAHWLEKALV----QNGFAVDCVFDG 33
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
0.322 0.137 0.395
Gapped
Lambda K H
0.267 0.0680 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,142,424
Number of extensions: 341710
Number of successful extensions: 459
Number of sequences better than 10.0: 1
Number of HSP's gapped: 456
Number of HSP's successfully gapped: 26
Length of query: 80
Length of database: 10,937,602
Length adjustment: 49
Effective length of query: 31
Effective length of database: 8,764,256
Effective search space: 271691936
Effective search space used: 271691936
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 (21.9 bits)
S2: 53 (24.3 bits)