RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16787
(120 letters)
>gnl|CDD|191068 pfam04716, ETC_C1_NDUFA5, ETC complex I subunit conserved region.
Family of eukaryotic NADH-ubiquinone oxidoreductase
subunits (EC:1.6.5.3) (EC:1.6.99.3) from complex I of
the electron transport chain initially identified in
Neurospora crassa as a 29.9 kDa protein. The conserved
region is found at the N-terminus of the member
proteins.
Length = 57
Score = 64.6 bits (158), Expect = 2e-15
Identities = 21/55 (38%), Positives = 40/55 (72%)
Query: 15 PDPKHSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEMETKI 69
P+P+ +L LY K L+ L K+P+D+ Y+KYT+ + R+K+V++ + ++++E KI
Sbjct: 1 PNPRAALIALYTKTLKKLKKIPEDSVYRKYTEALTKHRLKIVEEEEDVEKIEKKI 55
>gnl|CDD|119359 cd06542, GH18_EndoS-like, Endo-beta-N-acetylglucosaminidases are
bacterial chitinases that hydrolyze the chitin core of
various asparagine (N)-linked glycans and
glycoproteins. The endo-beta-N-acetylglucosaminidases
have a glycosyl hydrolase family 18 (GH18) catalytic
domain. Some members also have an additional
C-terminal glycosyl hydrolase family 20 (GH20) domain
while others have an N-terminal domain of unknown
function (pfam08522). Members of this family include
endo-beta-N-acetylglucosaminidase S (EndoS) from
Streptococcus pyogenes, EndoF1, EndoF2, EndoF3, and
EndoH from Flavobacterium meningosepticum, and EndoE
from Enterococcus faecalis. EndoS is a secreted
endoglycosidase from Streptococcus pyogenes that
specifically hydrolyzes the glycan on human IgG between
two core N-acetylglucosamine residues. EndoE is a
secreted endoglycosidase, encoded by the ndoE gene in
Enterococcus faecalis, that hydrolyzes the glycan on
human RNase B.
Length = 255
Score = 30.0 bits (68), Expect = 0.21
Identities = 14/31 (45%), Positives = 17/31 (54%)
Query: 21 LTVLYNKILRLLAKMPDDAAYKKYTKEIVDT 51
L++L N + A DAA K Y K IVDT
Sbjct: 69 LSILGNHLGAGFANNLSDAAAKAYAKAIVDT 99
>gnl|CDD|189000 cd08662, M13, Peptidase family M13 includes neprilysin,
endothelin-converting enzyme I. M13 family of
metallopeptidases includes neprilysin (neutral
endopeptidase, NEP, enkephalinase, CD10, CALLA, EC
3.4.24.11), endothelin-converting enzyme I (ECE-1, EC
3.4.24.71), erythrocyte surface antigen KELL (ECE-3),
phosphate-regulating gene on the X chromosome (PHEX),
soluble secreted endopeptidase (SEP), and damage-induced
neuronal endopeptidase (DINE)/X-converting enzyme (XCE).
These proteins consist of a short N-terminal cytoplasmic
domain, a single transmembrane helix, and a larger
C-terminal extracellular domain containing the active
site. Proteins in this family fulfill a broad range of
physiological roles due to the greater variation in the
S2' subsite allowing substrate specificity. NEP is
expressed in a variety of tissues including kidney and
brain, and is involved in many physiological and
pathological processes, including blood pressure and
inflammatory response. It degrades a wide array of
substrates such as substance P, enkephalins,
cholecystokinin, neurotensin and somatostatin. It is an
important enzyme in the regulation of amyloid-beta
(Abeta) protein that forms amyloid plaques that are
associated with Alzeimers disease (AD). ECE-1 catalyzes
the final rate-limiting step in the biosynthesis of
endothelins via post-translational conversion of the
biologically inactive big endothelins. Like NEP, it also
hydrolyses bradykinin, substance P, neurotensin and
Abeta. Endothelin-1 overproduction has been implicated
in various diseases, including stroke, asthma,
hypertension, and cardiac and renal failure. Kell is a
homolog of NEP and constitutes a major antigen on human
erythrocytes; it preferentially cleaves big endothelin-3
to produce bioactive endothelin-3, but is also known to
cleave substance P and neurokinin A. PHEX forms a
complex interaction with fibroblast growth factor 23
(FGF23) and matrix extracellular phosphoglycoprotein,
causing bone mineralization. A loss-of-function mutation
in PHEX disrupts this interaction leading to
hypophosphatemic rickets; X-linked hypophosphatemic
(XLH) rickets is the most common form of metabolic
rickets. ECEL1 is a brain metalloprotease involved in
the critical role in the nervous regulation of the
respiratory system, while DINE (damage induced neuronal
endopeptidase) is abundantly expressed in the
hypothalamus and its expression responds to nerve injury
as well. Thus, majority of these M13 proteases are prime
therapeutic targets for selective inhibition.
Length = 611
Score = 28.8 bits (65), Expect = 0.63
Identities = 30/119 (25%), Positives = 42/119 (35%), Gaps = 25/119 (21%)
Query: 8 LTGLAVSPDPKHSLT-VLYNKILRLLAKMPDD------------AAYKKYTKEIV----D 50
L GL VSPD K+S +LY L +PD AAYK Y +++ +
Sbjct: 88 LFGLGVSPDLKNSSRNILYLDQPGLG--LPDRDYYLDEKSKKIRAAYKAYLAKLLVLAGE 145
Query: 51 TRIKVVQQAKSIDEMETKIKSGQIEEVIIQAENELLLARKMLNWKPWEPLLKTSPPQQW 109
A+ + ET++ E E K N L K +P W
Sbjct: 146 DEEDAEALAEEVLAFETELAKISWSEE------ERRDPEKTYNPMTLAELQKLAPGIDW 198
>gnl|CDD|214635 smart00359, PUA, Putative RNA-binding Domain in PseudoUridine
synthase and Archaeosine transglycosylase.
Length = 76
Score = 27.2 bits (61), Expect = 0.82
Identities = 8/31 (25%), Positives = 13/31 (41%), Gaps = 2/31 (6%)
Query: 59 AKSIDEMETKIKSGQIEEVIIQAENELLLAR 89
A + ++ IK G + V+I E L
Sbjct: 21 APGVVRVDGDIKEG--DVVVIVDEKGEPLGI 49
>gnl|CDD|222689 pfam14335, DUF4391, Domain of unknown function (DUF4391). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria and archaea.
Proteins in this family are typically between 220 and
257 amino acids in length.
Length = 221
Score = 27.2 bits (61), Expect = 2.0
Identities = 20/84 (23%), Positives = 40/84 (47%), Gaps = 8/84 (9%)
Query: 8 LTGLAVSPDPKHSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEMET 67
L L++S +L LY I+ + K+ + Y KE + R++ ++Q I+E+E
Sbjct: 133 LDSLSLSLFSGLNLDALYESIVNQIIKLNASSNTGVYEKEDLKERVERLEQ---IEELEK 189
Query: 68 KIKSGQIEEVIIQAENELLLARKM 91
+I ++ + + E RK+
Sbjct: 190 -----EIAKLKKKLKKEKQFNRKV 208
>gnl|CDD|234190 TIGR03376, glycerol3P_DH, glycerol-3-phosphate dehydrogenase
(NAD(+)). Members of this protein family are the
eukaryotic enzyme, glycerol-3-phosphate dehydrogenase
(NAD(+)) (EC 1.1.1.8). Enzymatic activity for 1.1.1.8 is
defined as sn-glycerol 3-phosphate + NAD(+) = glycerone
phosphate + NADH. Note the very similar reactions of
enzymes defined as EC 1.1.1.94 and 1.1.99.5, assigned to
families of proteins in the bacteria.
Length = 342
Score = 27.3 bits (61), Expect = 2.2
Identities = 13/52 (25%), Positives = 26/52 (50%), Gaps = 5/52 (9%)
Query: 54 KVVQQAKSIDEMETKIKSGQIEEVIIQAE--NELLLARKMLNWKPWEPLLKT 103
+ KS++E+E ++ +GQ + + A+ +ELL + N PL +
Sbjct: 276 AFAKTGKSLEELEKELLNGQSLQGVATAKEVHELLKNK---NKDDEFPLFEA 324
>gnl|CDD|225103 COG2192, COG2192, Predicted carbamoyl transferase, NodU family
[Posttranslational modification, protein turnover,
chaperones].
Length = 555
Score = 27.3 bits (61), Expect = 2.5
Identities = 15/77 (19%), Positives = 23/77 (29%), Gaps = 11/77 (14%)
Query: 6 TGLTGLAVSPDPKHSLTVLYNKILRLLAKMPDDAAYK----------KYTKEIVDTRIKV 55
LT +A S SL + Y LL P+ K Y ++D +
Sbjct: 160 GQLTPIAQSRGI-DSLGLFYAAFTELLGFKPNSDEGKVMGLAAYGDPNYDLSLLDLLREK 218
Query: 56 VQQAKSIDEMETKIKSG 72
I+ K +
Sbjct: 219 EDGLFVINGELLKRLAR 235
>gnl|CDD|218734 pfam05758, Ycf1, Ycf1. The chloroplast genomes of most higher
plants contain two giant open reading frames designated
ycf1 and ycf2. Although the function of Ycf1 is unknown,
it is known to be an essential gene.
Length = 832
Score = 26.9 bits (60), Expect = 2.8
Identities = 22/97 (22%), Positives = 39/97 (40%), Gaps = 13/97 (13%)
Query: 20 SLTVLYNKILRLLAKMPDDAAYKKYTKEIVDT--------RIKVVQQAKSIDEMETKIKS 71
SL VL + RL +D K+Y +I D RIK + +++ +
Sbjct: 411 SLDVLEKRT-RLC----NDETKKEYLPKIYDPFLNGPYRGRIKKLLSPSILNDDSLTLIK 465
Query: 72 GQIEEVIIQAENELLLARKMLNWKPWEPLLKTSPPQQ 108
I+ I + +LL N++ + ++ T P Q
Sbjct: 466 NLIDTFWINKIHNILLKWISTNYQEFFNIITTDPNDQ 502
>gnl|CDD|237363 PRK13357, PRK13357, branched-chain amino acid aminotransferase;
Provisional.
Length = 356
Score = 26.6 bits (60), Expect = 3.1
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 53 IKVVQQAKSIDEMETKIKSGQIEEV 77
+ V ++ SIDE + SG+ E
Sbjct: 273 LTVEERPVSIDEWQADAASGEFTEA 297
>gnl|CDD|215250 PLN02456, PLN02456, citrate synthase.
Length = 455
Score = 26.1 bits (58), Expect = 4.6
Identities = 15/51 (29%), Positives = 21/51 (41%), Gaps = 10/51 (19%)
Query: 1 MCLQTTGLTGLAV-SPDPKHSL---------TVLYNKILRLLAKMPDDAAY 41
M +G+ L+ SPD L V I+RL+ K+P AA
Sbjct: 153 MTQLVSGVMALSTFSPDANAYLRGQHKYKSWEVRDEDIVRLIGKLPTLAAA 203
>gnl|CDD|218455 pfam05133, Phage_prot_Gp6, Phage portal protein, SPP1 Gp6-like.
This protein forms a hole, or portal, that enables DNA
passage during packaging and ejection. It also forms the
junction between the phage head (capsid) and the tail
proteins. During SPP1 morphogenesis, Gp6 participates in
the procapsid assembly reaction. This family also
includes the old Pfam family Phage_min_cap (PF05126).
Length = 435
Score = 26.2 bits (58), Expect = 5.1
Identities = 12/49 (24%), Positives = 18/49 (36%), Gaps = 1/49 (2%)
Query: 6 TGLTGLAVSPDPKHSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDTRIK 54
L G D + K++RLL DD K TK+ ++
Sbjct: 245 LVLKGYGEDDDEF-VKDLKDAKLIRLLDGAEDDGDAKFLTKQFPVASLE 292
>gnl|CDD|215108 PLN00222, PLN00222, tubulin gamma chain; Provisional.
Length = 454
Score = 26.0 bits (57), Expect = 6.3
Identities = 16/62 (25%), Positives = 26/62 (41%), Gaps = 8/62 (12%)
Query: 50 DTRIKVVQQAKSIDEMETKIKSGQIEEVIIQAENELLLARKMLNWKPWEP------LLKT 103
R K QAK I + I G+++ + + + RK+ N+ W P L +
Sbjct: 308 YARTKEASQAKYISIL--NIIQGEVDPTQVHKSLQRIRERKLANFIEWGPASIQVALSRK 365
Query: 104 SP 105
SP
Sbjct: 366 SP 367
>gnl|CDD|236871 PRK11175, PRK11175, universal stress protein UspE; Provisional.
Length = 305
Score = 25.6 bits (57), Expect = 7.0
Identities = 12/35 (34%), Positives = 18/35 (51%)
Query: 51 TRIKVVQQAKSIDEMETKIKSGQIEEVIIQAENEL 85
+K ++Q IDE +T ++ G EEVI L
Sbjct: 226 LAMKALRQKFGIDEEQTHVEEGLPEEVIPDLAEHL 260
>gnl|CDD|233392 TIGR01391, dnaG, DNA primase, catalytic core. Members of this
family are DNA primase, a ubiquitous bacteria protein.
Most members of this family contain nearly two hundred
additional residues C-terminal to the region represented
here, but conservation between species is poor and the
C-terminal region was not included in the seed
alignment. This protein contains a CHC2 zinc finger
(pfam01807) and a Toprim domain (pfam01751) [DNA
metabolism, DNA replication, recombination, and repair].
Length = 415
Score = 25.6 bits (57), Expect = 7.6
Identities = 9/38 (23%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 14 SPDPKHSLTVLYNKILRLLAKMPDDAAYKKYTKEIVDT 51
+P+ K L ++L L+ K+PD Y +++
Sbjct: 380 TPEEKAKL---VEELLPLIKKIPDPILRDYYLQKLAQL 414
>gnl|CDD|180523 PRK06305, PRK06305, DNA polymerase III subunits gamma and tau;
Validated.
Length = 451
Score = 25.5 bits (56), Expect = 8.4
Identities = 10/44 (22%), Positives = 17/44 (38%), Gaps = 4/44 (9%)
Query: 19 HSLTVLYNKILRLLAKMPDDAAYKKYTKE----IVDTRIKVVQQ 58
H LT+ + IL + KY+ E I+D + +
Sbjct: 285 HDLTLFFRNILLKQYNKQLSSVATKYSSEQLLEIIDFLGESAKH 328
>gnl|CDD|223430 COG0353, RecR, Recombinational DNA repair protein (RecF pathway)
[DNA replication, recombination, and repair].
Length = 198
Score = 25.2 bits (56), Expect = 9.0
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 62 IDEMETKIKSGQIEEVII 79
IDE+ ++ G I+EVI+
Sbjct: 124 IDELLQRLAEGSIKEVIL 141
>gnl|CDD|236358 PRK08961, PRK08961, bifunctional aspartate kinase/diaminopimelate
decarboxylase protein; Provisional.
Length = 861
Score = 25.4 bits (56), Expect = 9.7
Identities = 11/55 (20%), Positives = 20/55 (36%)
Query: 30 RLLAKMPDDAAYKKYTKEIVDTRIKVVQQAKSIDEMETKIKSGQIEEVIIQAENE 84
RLL + Y V R + + ++D+ IK+ ++ E E
Sbjct: 494 RLLTLSDAGSPCYVYHLPTVRARARALAALAAVDQRFYAIKANPHPAILRTLEEE 548
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 0.394
Gapped
Lambda K H
0.267 0.0833 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,126,809
Number of extensions: 531262
Number of successful extensions: 672
Number of sequences better than 10.0: 1
Number of HSP's gapped: 671
Number of HSP's successfully gapped: 54
Length of query: 120
Length of database: 10,937,602
Length adjustment: 83
Effective length of query: 37
Effective length of database: 7,256,220
Effective search space: 268480140
Effective search space used: 268480140
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 (21.6 bits)
S2: 53 (24.0 bits)