RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13425
(224 letters)
>gnl|CDD|216389 pfam01251, Ribosomal_S7e, Ribosomal protein S7e.
Length = 189
Score = 271 bits (696), Expect = 1e-93
Identities = 126/220 (57%), Positives = 157/220 (71%), Gaps = 34/220 (15%)
Query: 6 SKIIKKGGE-PDAFENSISQALLELEMNS-DLKAQLRELYITRAKEIDLGGKKSVIVYVP 63
+KIIK G P E S++QAL +LE NS DLKA+LR+L IT AKEI++GG
Sbjct: 1 NKIIKPKGSKPSELELSVAQALFDLESNSPDLKAELRDLQITSAKEIEVGG--------- 51
Query: 64 MPQLKQFQKIQPRLVPKEIDLGGKKSVIVYVPMPQLKQFQKIQPRLVRELEKKFSGKHVV 123
GKK+V+++VP+PQLK ++KIQ RLVRELEKKFSGKHVV
Sbjct: 52 ----------------------GKKAVVIFVPVPQLKAYRKIQQRLVRELEKKFSGKHVV 89
Query: 124 FIGDRKILPKPTRKTRAKTKQKRPRSRTLTSVYDCILEDIVFPAEIVGKRIKVKLDGKQL 183
F+ R+ILPKP RK+R + KQKRPRSRTLT+V+D ILED+V+PAEIVGKRI+ +LDG +L
Sbjct: 90 FVAQRRILPKPKRKSRYQ-KQKRPRSRTLTAVHDAILEDLVYPAEIVGKRIRYRLDGSKL 148
Query: 184 IKVHLDKNQQTNIEHKTDTFSQIYKKLTGREVNFEFPEPY 223
IKV LD QTN+EHK D+FS +YKKLTG++V FEFPE
Sbjct: 149 IKVFLDSKDQTNVEHKLDSFSAVYKKLTGKDVVFEFPETN 188
>gnl|CDD|185592 PTZ00389, PTZ00389, 40S ribosomal protein S7; Provisional.
Length = 184
Score = 191 bits (487), Expect = 5e-62
Identities = 93/216 (43%), Positives = 127/216 (58%), Gaps = 35/216 (16%)
Query: 7 KIIKKGGEPDAFENSISQALLELEMNS-DLKAQLRELYITRAKEIDLGGKKSVIVYVPMP 65
K EP E +++AL ELE +S DLKA L+ L I+ KE+ +G K
Sbjct: 1 IKKLKKAEPSELEKQVAKALFELEASSKDLKADLKNLKISSVKEVTVGKDK--------- 51
Query: 66 QLKQFQKIQPRLVPKEIDLGGKKSVIVYVPMPQLKQFQKIQPRLVRELEKKFSGKHVVFI 125
KK+V+V+VP L ++KIQ +L+ ELEKK KHVV +
Sbjct: 52 ---------------------KKAVVVFVPYRMLMIYRKIQRKLIPELEKKL-KKHVVIV 89
Query: 126 GDRKILPKPTRKTRAKTKQKRPRSRTLTSVYDCILEDIVFPAEIVGKRIKVKLDGKQLIK 185
R IL KP + + + RPRSRTLT+V++ ILED+V+P+EIVGKR +V++DG +L+K
Sbjct: 90 AQRTILKKPVKNYK---LKTRPRSRTLTAVHEAILEDLVYPSEIVGKRTRVRVDGSKLLK 146
Query: 186 VHLDKNQQTNIEHKTDTFSQIYKKLTGREVNFEFPE 221
V LD + N+E K D FS +YKKLTGR+V FEFP
Sbjct: 147 VFLDPKDRKNVEEKLDAFSAVYKKLTGRDVVFEFPW 182
>gnl|CDD|213315 cd05968, AACS_like, Uncharacterized acyl-CoA synthetase subfamily
similar to Acetoacetyl-CoA synthetase. This
uncharacterized acyl-CoA synthetase family is highly
homologous to acetoacetyl-CoA synthetase. However, the
proteins in this family exist in only bacteria and
archaea. AACS is a cytosolic ligase that specifically
activates acetoacetate to its coenzyme A ester by a
two-step reaction. Acetoacetate first reacts with ATP to
form an acyl-adenylate intermediate, which then reacts
with CoA to produce an acyl-CoA ester. This is the first
step of the mevalonate pathway of isoprenoid
biosynthesis via isopentenyl diphosphate. Isoprenoids
are a large class of compounds found in all living
organisms.
Length = 474
Score = 30.3 bits (69), Expect = 0.72
Identities = 18/63 (28%), Positives = 25/63 (39%), Gaps = 10/63 (15%)
Query: 78 VPKEIDLGGKKSVIVYVPMPQLKQFQKIQPRL----VRELEKKFSGKHVVFIGDRKILPK 133
VP + G+ V V P + ++ L L K F + V F+ D LPK
Sbjct: 391 VPDPVK--GEAIVCFVVLKPGVTPSAALEAELADHVGDALGKPFRPREVHFVSD---LPK 445
Query: 134 PTR 136
TR
Sbjct: 446 -TR 447
>gnl|CDD|172682 PRK14194, PRK14194, bifunctional 5,10-methylene-tetrahydrofolate
dehydrogenase/ 5,10-methylene-tetrahydrofolate
cyclohydrolase; Provisional.
Length = 301
Score = 28.7 bits (64), Expect = 2.2
Identities = 20/69 (28%), Positives = 28/69 (40%), Gaps = 8/69 (11%)
Query: 108 RLVRELEKKFSGKHVVFIGDRKILPKPTR----KTRAKTKQKRPRSRTLTSVYDCILEDI 163
RL+ + +GKH V IG I+ KP + RS ++ C DI
Sbjct: 148 RLLEDTCGDLTGKHAVVIGRSNIVGKPMAALLLQAHCSVTVVHSRSTDAKAL--CRQADI 205
Query: 164 VFPAEIVGK 172
V A VG+
Sbjct: 206 VVAA--VGR 212
>gnl|CDD|212511 cd09015, Ureohydrolase, Ureohydrolase superfamily includes
arginase, formiminoglutamase, agmatinase and
proclavaminate amidinohydrolase (PAH). This family,
also known as arginase-like amidino hydrolase family,
includes Mn-dependent enzymes: arginase (Arg, EC
3.5.3.1), formimidoylglutamase (HutG, EC 3.5.3.8 ),
agmatinase (SpeB, EC 3.5.3.11), guanidinobutyrase (Gbh,
EC=3.5.3.7), proclavaminate amidinohydrolase (PAH, EC
3.5.3.22) and related proteins. These enzymes catalyze
hydrolysis of amide bond. They are involved in control
of cellular levels of arginine and ornithine (both
involved in protein biosynthesis, and production of
creatine, polyamines, proline and nitric acid), in
histidine and arginine degradation, and in clavulanic
acid biosynthesis.
Length = 270
Score = 28.5 bits (64), Expect = 2.3
Identities = 11/31 (35%), Positives = 15/31 (48%)
Query: 114 EKKFSGKHVVFIGDRKILPKPTRKTRAKTKQ 144
E + S KH+V IG R + P P A+
Sbjct: 138 ELQQSPKHIVCIGVRGLDPGPALFEYARKLG 168
>gnl|CDD|191413 pfam05970, PIF1, PIF1-like helicase. This family includes
homologues of the PIF1 helicase, which inhibits
telomerase activity and is cell cycle regulated. This
family includes a large number of largely
uncharacterized plant proteins. This family includes a
P-loop motif that is involved in nucleotide binding.
Length = 364
Score = 28.9 bits (65), Expect = 2.5
Identities = 25/78 (32%), Positives = 38/78 (48%), Gaps = 12/78 (15%)
Query: 72 KIQPRLVPKEIDLGGKKSVIVY--VPMPQLKQFQKIQPRLVR------ELEKKFSGKHVV 123
KI+ K +L S+I++ PM F+ + R +R ++K F GK VV
Sbjct: 89 KIKRG--SKLAELLENTSLIIWDEAPMVNRHCFEALD-RTLRDILKETNIDKPFGGKTVV 145
Query: 124 FIGD-RKILPKPTRKTRA 140
GD R+ILP + +RA
Sbjct: 146 LGGDFRQILPVIPKGSRA 163
>gnl|CDD|172659 PRK14171, PRK14171, bifunctional 5,10-methylene-tetrahydrofolate
dehydrogenase/ 5,10-methylene-tetrahydrofolate
cyclohydrolase; Provisional.
Length = 288
Score = 28.4 bits (63), Expect = 3.0
Identities = 30/101 (29%), Positives = 48/101 (47%), Gaps = 15/101 (14%)
Query: 44 ITRAKEIDLGGKKS-VIVYVPMPQLKQFQKIQPRLVP-KEID------LGGKKSVIV--Y 93
I++ E++L + S +IV +P+P KI + P K+ID +G S I +
Sbjct: 79 ISKINELNLDNEISGIIVQLPLPSSIDKNKILSAVSPSKDIDGFHPLNVGYLHSGISQGF 138
Query: 94 VPMPQLKQFQKIQPRLVRELEKKFSGKHVVFIGDRKILPKP 134
+P L I ++ E +GK+VV IG I+ KP
Sbjct: 139 IPCTALGCLAVI-----KKYEPNLTGKNVVIIGRSNIVGKP 174
>gnl|CDD|221413 pfam12080, GldM_C, GldM C-terminal domain. This domain is found in
bacteria at the C-terminus of the GldM protein. This
domain is typically between 169 to 182 amino acids in
length. This domain has two completely conserved
residues (Y and N) that may be functionally important.
GldM, is named for the member from Cytophaga johnsonae
(Flavobacterium johnsoniae), which is required for a
type of rapid gliding motility found in certain members
of the Bacteriodetes.
Length = 175
Score = 27.7 bits (62), Expect = 3.8
Identities = 17/60 (28%), Positives = 22/60 (36%), Gaps = 2/60 (3%)
Query: 129 KILPKPTRKTRAKTKQKRPRSRTLTS--VYDCILEDIVFPAEIVGKRIKVKLDGKQLIKV 186
K LP PT R + + R L D ED F A +VK+ + I V
Sbjct: 83 KALPDPTGTVRGEKGGAQMPKRNLEVAAKIDASFEDFPFDANYEVTGFEVKVPRQPTIVV 142
>gnl|CDD|240285 PTZ00135, PTZ00135, 60S acidic ribosomal protein P0; Provisional.
Length = 310
Score = 27.7 bits (62), Expect = 4.5
Identities = 19/61 (31%), Positives = 27/61 (44%)
Query: 31 MNSDLKAQLRELYITRAKEIDLGGKKSVIVYVPMPQLKQFQKIQPRLVPKEIDLGGKKSV 90
M K ++ Y + E+ KK +IV V KQ Q I+ L K L GK ++
Sbjct: 1 MAKPEKKAKKKAYFEKLYELLEKYKKILIVSVDNVGSKQMQDIRRSLRGKAELLMGKNTL 60
Query: 91 I 91
I
Sbjct: 61 I 61
>gnl|CDD|184561 PRK14192, PRK14192, bifunctional 5,10-methylene-tetrahydrofolate
dehydrogenase/ 5,10-methylene-tetrahydrofolate
cyclohydrolase; Provisional.
Length = 283
Score = 27.9 bits (62), Expect = 4.6
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 108 RLVRELEKKFSGKHVVFIGDRKILPKP 134
RL++ + +GKH V +G IL KP
Sbjct: 148 RLLKAYNIELAGKHAVVVGRSAILGKP 174
>gnl|CDD|235701 PRK06116, PRK06116, glutathione reductase; Validated.
Length = 450
Score = 27.8 bits (63), Expect = 5.6
Identities = 10/23 (43%), Positives = 13/23 (56%), Gaps = 2/23 (8%)
Query: 176 VKLDGKQLIKVHLDKNQQTNIEH 198
VKL+ K I V D+ Q TN+
Sbjct: 277 VKLNEKGYIIV--DEYQNTNVPG 297
>gnl|CDD|220272 pfam09508, Lact_bio_phlase, Lacto-N-biose phosphorylase. The gene
which codes for this protein in gut-bacteria is located
in a novel putative operon for galactose metabolism. The
protein appears to be a carbohydrate-processing
phosphorolytic enzyme (EC:2.4.1.211), unlike either
glycoside hydrolases or glycoside lyase. Intestinal
colonisation by bifidobacteria is important for human
health, especially in pediatrics, because colonisation
seems to prevent infection by some pathogenic bacteria
that cause diarrhoea or other illnesses. The operon
seems to be involved in intestinal colonisation by
bifidobacteria mediated by metabolism of mucin sugars.
In addition, it may also resolve the question of the
nature of the bifidus factor in human milk as the
lacto-N-biose structure found in milk oligosaccharides.
Length = 716
Score = 27.8 bits (62), Expect = 5.6
Identities = 22/81 (27%), Positives = 38/81 (46%), Gaps = 8/81 (9%)
Query: 62 VPMPQLKQFQK-IQPRLVPKEIDLGGKKSVIVYVPMPQLKQFQKIQPRLVRELEKKF--- 117
V L+QF+K +L P++ G + VP Q + + + Q R V + K+
Sbjct: 236 VSPYALEQFEKEYGYKLRPEDFIDQGYYNSTYRVPSKQFRDWMEFQQRFVVKFAKELVDI 295
Query: 118 ---SGKH-VVFIGDRKILPKP 134
+GK ++F+GD I +P
Sbjct: 296 VHEAGKEAMMFLGDHWIGTEP 316
>gnl|CDD|113491 pfam04723, GRDA, Glycine reductase complex selenoprotein A. Found
in clostridia, this protein contains one active site
selenocysteine and catalyzes the reductive deamination
of glycine, which is coupled to the esterification of
orthophosphate resulting in the formation of ATP. A
member of this family may also exist in Treponema
denticola.
Length = 150
Score = 26.8 bits (59), Expect = 5.7
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 117 FSGKHVVFIGDRKILPKP 134
F GK V+ IGDR +P P
Sbjct: 3 FQGKKVIIIGDRDGIPGP 20
>gnl|CDD|223716 COG0643, CheA, Chemotaxis protein histidine kinase and related
kinases [Cell motility and secretion / Signal
transduction mechanisms].
Length = 716
Score = 27.7 bits (62), Expect = 5.8
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 11/45 (24%)
Query: 94 VPMPQLKQFQKIQPRLVRELEKKFSGKHV--VFIG-----DRKIL 131
VP Q+ F + PR+VR+L +K GK V V G D+ IL
Sbjct: 390 VPFEQV--FSR-FPRMVRDLARKL-GKQVELVIEGEDTELDKSIL 430
>gnl|CDD|221057 pfam11279, DUF3080, Protein of unknown function (DUF3080). Some
members in this family of proteins are annotated as
lipoproteins however this cannot be confirmed. Currently
this family has no known function.
Length = 315
Score = 27.3 bits (61), Expect = 7.9
Identities = 8/28 (28%), Positives = 15/28 (53%)
Query: 18 FENSISQALLELEMNSDLKAQLRELYIT 45
F +++ L L ++ +LKA+L E
Sbjct: 84 FIRALNACLASLPLSEELKAELTEALQQ 111
>gnl|CDD|222410 pfam13839, PC-Esterase, GDSL/SGNH-like Acyl-Esterase family found
in Pmr5 and Cas1p. The PC-Esterase family is comprised
of Cas1p, the Homo sapiens C7orf58, Arabidopsis thaliana
PMR5 and a group of plant freezing
resistance/coldacclimatization proteins typified by
Arabidopsis thaliana ESKIMO1, animal FAM55D proteins,
and animal FAM113 proteins. The PC-Esterase family has
features that are both similar and different from the
canonical GDSL/SGNH superfamily. The members of this
family are predicted to have Acyl esterase activity and
predicted to modify cell-surface biopolymers such as
glycans and glycoproteins. The Cas1p protein has a
Cas1_AcylT domain, in addition, with the opposing
acyltransferase activity. The C7orf58 family has a
ATP-Grasp domain fused to the PC-Esterase and is the
first identified secreted tubulin-tyrosine ligase like
enzyme in eukaryotes. The plant family with PMR5, ESK1,
TBL3 etc have a N-terminal C rich potential sugar
binding domain followed by the PC-Esterase domain.
Length = 270
Score = 26.6 bits (59), Expect = 9.8
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 110 VRELEKKFSGKHVVFIGD 127
++ ++ GK VVF+GD
Sbjct: 6 AQQFLERLRGKRVVFVGD 23
>gnl|CDD|183931 PRK13265, PRK13265, glycine/sarcosine/betaine reductase complex
protein A; Reviewed.
Length = 154
Score = 26.2 bits (58), Expect = 9.8
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 116 KFSGKHVVFIGDRKILPKPTRKTRAKT 142
GK V+ IGDR +P P + KT
Sbjct: 3 LLEGKKVIIIGDRDGIPGPAIEECVKT 29
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
0.319 0.138 0.383
Gapped
Lambda K H
0.267 0.0682 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,487,848
Number of extensions: 1109039
Number of successful extensions: 1211
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1202
Number of HSP's successfully gapped: 39
Length of query: 224
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 131
Effective length of database: 6,812,680
Effective search space: 892461080
Effective search space used: 892461080
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 (21.7 bits)
S2: 57 (25.8 bits)