RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy18031
(136 letters)
>gnl|CDD|202184 pfam02271, UCR_14kD, Ubiquinol-cytochrome C reductase complex 14kD
subunit. The ubiquinol-cytochrome C reductase complex
(cytochrome bc1 complex) is a respiratory multienzyme
complex. This Pfam family represents the 14kD (or VI)
subunit of the complex which is not directly involved in
electron transfer, but has a role in assembly of the
complex.
Length = 105
Score = 111 bits (279), Expect = 6e-33
Identities = 48/92 (52%), Positives = 64/92 (69%), Gaps = 1/92 (1%)
Query: 41 LQKWAWEYSGFRKYGLYYDDL-ANETPVVEEALRRLPEKLKNERHFRQLRAVQLNIQKSI 99
L KW + SG+R+ GL YDDL E P V+EALRRLP + R FR RA+QL++ +
Sbjct: 14 LAKWYFNASGYRQLGLRYDDLIPEENPDVQEALRRLPREESYARVFRIKRAMQLSLSHQL 73
Query: 100 LPKDQWTKYEDETRYLKPYIEQVEKEFKEKEE 131
LPK++WTK E++ YL PYI +VE+E KE+EE
Sbjct: 74 LPKEEWTKPEEDVPYLSPYILEVEREAKEREE 105
>gnl|CDD|224202 COG1283, NptA, Na+/phosphate symporter [Inorganic ion transport and
metabolism].
Length = 533
Score = 29.5 bits (67), Expect = 0.47
Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 8/57 (14%)
Query: 60 DLANETPVVEEALRRLPEKLKNERHFRQLRAVQLNIQKSILPKDQWTKYEDETRYLK 116
+LA ++ +RRL E+ ++RH +LR +++ S L + D R LK
Sbjct: 468 ELARRLVERKKRVRRL-ERRSSKRHLDRLRDGAASVETSSL-------HLDILRDLK 516
>gnl|CDD|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated.
Length = 646
Score = 29.5 bits (67), Expect = 0.48
Identities = 19/124 (15%), Positives = 48/124 (38%), Gaps = 3/124 (2%)
Query: 13 EVLTHTSADVHDFESSKTHLIFVYISGALQKWAWEYSGFRKYGLYYDDLANETPVVEEAL 72
E + D+ K +FV + + + Y VV L
Sbjct: 127 EPWGNFDLDLSLLLGFKYVSVFVGTVPEDKLEELKLESDVENVEYISTDKGYVYVVVVVL 186
Query: 73 RRLPEKLKNERHFRQLRAVQLNIQKSILPKDQWTKYEDETRYLKPYIEQVEKEFKE-KEE 131
+ L ++++ E ++L +L +++ P + + ++E ++ E + +E KE ++
Sbjct: 187 KELSDEVEEE--LKKLGFERLELEEEGTPSELIREIKEELEEIEKERESLLEELKELAKK 244
Query: 132 WGKL 135
+ +
Sbjct: 245 YLEE 248
>gnl|CDD|111927 pfam03086, DUF240, MG032/MG096/MG288 family 2. This family
consists entirely of mycoplasmal proteins. Their
function is unknown. Another related family, pfam03072,
also consists entirely of mycoplasmal proteins of the
MG032/MG096/MG288 family. Some proteins are included in
both families, but of course differ in the aligned
residues.
Length = 119
Score = 28.4 bits (64), Expect = 0.65
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 87 QLRAVQLNIQKSILPKD-QWTKYEDETRYLKPYIEQVEKEFKEKE 130
Q + +N+ KSI+ D + + E L P+ + E+ E E
Sbjct: 75 QFFDLNVNLTKSIIQLDLEAAETRFEEEILNPFKAEREEAKAEHE 119
>gnl|CDD|216531 pfam01496, V_ATPase_I, V-type ATPase 116kDa subunit family. This
family consists of the 116kDa V-type ATPase (vacuolar
(H+)-ATPases) subunits, as well as V-type ATP synthase
subunit i. The V-type ATPases family are proton pumps
that acidify intracellular compartments in eukaryotic
cells for example yeast central vacuoles,
clathrin-coated and synaptic vesicles. They have
important roles in membrane trafficking processes. The
116kDa subunit (subunit a) in the V-type ATPase is part
of the V0 functional domain responsible for proton
transport. The a subunit is a transmembrane glycoprotein
with multiple putative transmembrane helices it has a
hydrophilic amino terminal and a hydrophobic carboxy
terminal. It has roles in proton transport and assembly
of the V-type ATPase complex. This subunit is encoded by
two homologous gene in yeast VPH1 and STV1.
Length = 707
Score = 26.2 bits (58), Expect = 6.4
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 106 TKYEDETRYLKPYIEQVEKEFKEKEEWG 133
E E + ++ +E +EKE E EEW
Sbjct: 77 LDLEAEIKEVEENLESLEKEINELEEWL 104
>gnl|CDD|235585 PRK05733, PRK05733, single-stranded DNA-binding protein;
Provisional.
Length = 172
Score = 26.0 bits (57), Expect = 6.5
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 35 VYISGALQKWAWEYSGFRKY 54
VYI G LQ WE G ++Y
Sbjct: 77 VYIEGKLQTREWEKDGIKRY 96
>gnl|CDD|215801 pfam00223, PsaA_PsaB, Photosystem I psaA/psaB protein.
Length = 682
Score = 25.8 bits (57), Expect = 8.6
Identities = 20/65 (30%), Positives = 26/65 (40%), Gaps = 24/65 (36%)
Query: 20 ADVHDFESSKTHL-----------------IFVYISGALQKWAWEYSGFRKYGLYYDDLA 62
AD HDFES + L IF+++SG L AW + Y LA
Sbjct: 20 ADAHDFESHTSTLEELSQKIFSAHFGHLAIIFLWLSGMLFHGAW-------FSNYEAWLA 72
Query: 63 NETPV 67
+ T V
Sbjct: 73 DPTHV 77
>gnl|CDD|217284 pfam02915, Rubrerythrin, Rubrerythrin. This domain has a
ferritin-like fold.
Length = 137
Score = 25.4 bits (56), Expect = 8.7
Identities = 18/92 (19%), Positives = 30/92 (32%), Gaps = 7/92 (7%)
Query: 47 EYSGFRKYGLYYDDLANETPVVEEALRRLP--EKLKNERHFRQLRAVQLNIQKSILPKDQ 104
E S R+Y + E P + E + E+ + L+ + L ++ IL +
Sbjct: 10 ESSARRRYKELAEKAKGEGPQIAELFEEMAEEERRHAGFLNKLLKDLFLGLELGILKEHV 69
Query: 105 WTKYEDETRYLKPY-----IEQVEKEFKEKEE 131
+ L IE E KE
Sbjct: 70 EYTFFPVADELTRENLKEAIEGAMLEEKEAYP 101
>gnl|CDD|216689 pfam01765, RRF, Ribosome recycling factor. The ribosome recycling
factor (RRF / ribosome release factor) dissociates the
ribosome from the mRNA after termination of translation,
and is essential bacterial growth. Thus ribosomes are
"recycled" and ready for another round of protein
synthesis.
Length = 165
Score = 25.5 bits (57), Expect = 9.0
Identities = 9/36 (25%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 96 QKSILPKDQWTKYEDETRYL-KPYIEQVEKEFKEKE 130
+ + +D+ + E E + L YI+++++ K+KE
Sbjct: 126 KDKEISEDEVKRAEKEIQKLTDKYIKKIDELLKKKE 161
>gnl|CDD|216659 pfam01715, IPPT, IPP transferase. This is a family of IPP
transferases EC:2.5.1.8 also known as tRNA
delta(2)-isopentenylpyrophosphate transferase. These
enzymes modify both cytoplasmic and mitochondrial tRNAs
at A(37) to give isopentenyl A(37).
Length = 253
Score = 25.7 bits (57), Expect = 9.3
Identities = 15/56 (26%), Positives = 21/56 (37%), Gaps = 7/56 (12%)
Query: 55 GLYY-------DDLANETPVVEEALRRLPEKLKNERHFRQLRAVQLNIQKSILPKD 103
GLY+ D + P V L E+L N+ +L +V I P D
Sbjct: 66 GLYFKALLDGLSDTPSADPKVRAKLEEQLEELGNDYLHAELASVDPEAAAKIHPND 121
>gnl|CDD|143359 cd07854, STKc_MAPK4_6, Catalytic domain of the Serine/Threonine
Kinases, Mitogen-Activated Protein Kinases 4 and 6.
Serine/Threonine Kinases (STKs), Mitogen-Activated
Protein Kinase 4 (MAPK4) and MAPK6 subfamily, catalytic
(c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The MAPK4/6 subfamily
is part of a larger superfamily that includes the
catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. MAPKs are important
mediators of cellular responses to extracellular
signals. MAPK4 is also called ERK4 or p63MAPK, while
MAPK6 is also called ERK3 or p97MAPK. MAPK4 and MAPK6
are atypical MAPKs that are not regulated by MAP2Ks.
MAPK6 is expressed ubiquitously with highest amounts in
brain and skeletal muscle. It may be involved in the
control of cell differentiation by negatively
regulating cell cycle progression in certain
conditions. It may also play a role in glucose-induced
insulin secretion. MAPK6 and MAPK4 cooperate to
regulate the activity of MAPK-activated protein kinase
5 (MK5), leading to its relocation to the cytoplasm and
exclusion from the nucleus. The MAPK6/MK5 and MAPK4/MK5
pathways may play critical roles in embryonic and
post-natal development.
Length = 342
Score = 25.5 bits (56), Expect = 9.5
Identities = 14/36 (38%), Positives = 21/36 (58%)
Query: 2 RLLNKRLVRTYEVLTHTSADVHDFESSKTHLIFVYI 37
RL + +V+ YEVL + +D+ + S T L VYI
Sbjct: 58 RLDHDNIVKVYEVLGPSGSDLTEDVGSLTELNSVYI 93
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
0.318 0.135 0.404
Gapped
Lambda K H
0.267 0.0741 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,228,291
Number of extensions: 655762
Number of successful extensions: 840
Number of sequences better than 10.0: 1
Number of HSP's gapped: 837
Number of HSP's successfully gapped: 50
Length of query: 136
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 49
Effective length of database: 7,078,804
Effective search space: 346861396
Effective search space used: 346861396
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: 54 (24.6 bits)