RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11525
(244 letters)
>gnl|CDD|225559 COG3014, COG3014, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 449
Score = 34.5 bits (79), Expect = 0.038
Identities = 18/97 (18%), Positives = 38/97 (39%), Gaps = 3/97 (3%)
Query: 83 SVLHSYAASHSWPQALSLCRTLNDDILWACLAGM-ATYSRDLATSEEAYAAIEQVDKVMY 141
++ + + ++ Q+ + + +LW G+ A Y+RD ATS A EQ +
Sbjct: 33 TLYYEESPKKAYEQSKQFTKKKKNALLWDLQNGLSALYARDYATSLGVLDAAEQ--RFKQ 90
Query: 142 INHIKGIPVKAAQQAEMYLLGGNISEAESILLQHGLI 178
+ + A ++ N+ + + LI
Sbjct: 91 QQDTQSASTRGAGYVGATMINDNVRAYGGNIYEGVLI 127
>gnl|CDD|100032 cd02196, PurM, PurM (Aminoimidazole Ribonucleotide [AIR]
synthetase), one of eleven enzymes required for purine
biosynthesis, catalyzes the conversion of
formylglycinamide ribonucleotide (FGAM) and ATP to AIR,
ADP, and Pi, the fifth step in de novo purine
biosynthesis. The N-terminal domain of PurM is related
to the ATP-binding domains of hydrogen
expression/formation protein HypE, the AIR synthases,
selenophosphate synthetase (SelD), and FGAM synthase and
is thought to bind ATP.
Length = 297
Score = 29.4 bits (67), Expect = 1.6
Identities = 10/23 (43%), Positives = 14/23 (60%), Gaps = 1/23 (4%)
Query: 145 IKGIPVKAAQQAEMYLLGGNISE 167
+KGI + +QA LLGG +E
Sbjct: 85 VKGI-AEGCRQAGCALLGGETAE 106
>gnl|CDD|197367 cd09850, Ebola-like_HR1-HR2, heptad repeat 1-heptad repeat 2 region
of the transmembrane subunit of Filoviridae viruses,
Ebola virus and Marburg virus, and related domains.
This domain subfamily spans both heptad repeats of the
glycoprotein (gp)/transmembrane subunit of various
endogenous retroviruses (ERVs) and infectious
retroviruses, including Ebola virus gp2, Marburg virus
gp, and the envelope proteins of various ERVs, including
human HERV-R_c7q21.2 (ERV-3). This domain includes an
N-terminal heptad repeat, a CKS17-like immunosuppressive
region, a CX6C motif that forms an intrasubunit
disulfide bond, and a C-terminal heptad repeat.
N-terminal to HR1-HR2 region is a fusion peptide (FP),
and C-terminal, is a membrane-spanning region (MSR).
Viral infection involves the formation of a
trimer-of-hairpins structure (three HR1s helices,
buttressed by three HR2 helices lying in antiparallel
orientation). In this structure, the FP (inserted in the
host cell membrane) and MSR (inserted in the viral
membrane) are in close proximity. ERVs are likely to
originate from ancient germ-line infections by active
retroviruses. Some ERVs play specific roles in the host.
However, it is unclear whether ERV-3 has a critical
biological role: it is expressed in the placenta, but is
not fusogenic, has an immunosuppressive domain, but
lacks a fusion peptide. Filoviridae, the family of
viruses including Ebola and Marburg, may have acquired
this domain via horizontal transfer from retroviruses.
Length = 77
Score = 27.5 bits (61), Expect = 1.8
Identities = 15/36 (41%), Positives = 20/36 (55%)
Query: 184 VSILTHNWDRALELALRHKTHIDTVLYQRKKYLDNL 219
+ IL + +ALEL LR T + T YQ + LD L
Sbjct: 2 LEILANETAQALELLLRQTTEMRTFSYQNRLALDYL 37
>gnl|CDD|189043 cd09873, PIN_Pae0151, PIN domain of the Pyrobaculum aerophilum
Pae0151 and Pae2754 proteins and homologs. Virulence
associated protein C (VapC)-like PIN (PilT N terminus)
domain of the Pyrobaculum aerophilum proteins, Pae0151
and Pae2754, and homologs are included in this
subfamily. They are similar to the PIN domains of the
Mycobacterium tuberculosis VapC and Neisseria
gonorrhoeae FitB toxins of the prokaryotic
toxin/antitoxin operons, VapBC and FitAB, respectively,
which are believed to be involved in growth inhibition
by regulating translation. These toxins are nearly
always co-expressed with an antitoxin, a cognate protein
inhibitor, forming an inert protein complex.
Disassociation of the protein complex activates the
ribonuclease activity of the toxin by an, as yet
undefined mechanism. VapC-like PIN domains are
structural homologs of flap endonuclease-1 (FEN1)-like
PIN domains, but lack the extensive arch/clamp region
and the H3TH (helix-3-turn-helix) domain, an atypical
helix-hairpin-helix-2-like region, seen in FEN1-like PIN
domains. PIN domains within this subgroup contain four
highly conserved acidic residues. These putative active
site residues are thought to bind Mg2+ and/or Mn2+ ions
and be essential for single-stranded ribonuclease
activity.
Length = 127
Score = 28.0 bits (63), Expect = 2.5
Identities = 10/44 (22%), Positives = 18/44 (40%)
Query: 159 YLLGGNISEAESILLQHGLIFRAIQVSILTHNWDRALELALRHK 202
+ G ++ E+ L+ ++V L ALE+A H
Sbjct: 47 AVRRGRLTAEEAEEALEDLLALPLEVISLEELLPEALEIAREHG 90
>gnl|CDD|215623 PLN03190, PLN03190, aminophospholipid translocase; Provisional.
Length = 1178
Score = 28.7 bits (64), Expect = 3.9
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 6/46 (13%)
Query: 169 ESILLQHGLIFRAIQVSILTHNWDRALELALRHKTHIDTVLYQRKK 214
E I+L LI VS+ W R RH+ +DT+ + R+K
Sbjct: 332 EIIILSLFLIALCTIVSVCAAVWLR------RHRDELDTIPFYRRK 371
>gnl|CDD|220811 pfam10565, NMDAR2_C, N-methyl D-aspartate receptor 2B3 C-terminus.
This domain is found at the C-terminus of many
NMDA-receptor proteins, many of which also carry the
Ligated ion-channel family pfam00060 further upstream as
well as the ANF_receptor family pfam01094. This region
is predicted to be a large extra-cellular domain of the
NMDA receptor proteins, being highly hydrophilic, and is
thought to be integrally involved in the function of the
receptor. The region also carries a number of potential
N-glycosylation sites.
Length = 660
Score = 28.2 bits (63), Expect = 4.1
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 212 RKKYLDNLEKIETNEKFLRLQSEVIMSGLRTP 243
RKKY D+L+K + K R EV +S L++
Sbjct: 248 RKKYKDSLKKRPASAKSRRELDEVELSYLKSK 279
>gnl|CDD|223962 COG1031, COG1031, Uncharacterized Fe-S oxidoreductase [Energy
production and conversion].
Length = 560
Score = 27.7 bits (62), Expect = 5.7
Identities = 29/98 (29%), Positives = 42/98 (42%), Gaps = 24/98 (24%)
Query: 123 LATSEEAYAAIEQVDKVMY-------------INHIKGIPVKAAQQAEMYLLGGNISEAE 169
A+ EE A+E V++V IN + G+P + E Y L N +
Sbjct: 332 NASPEEVLEAVEIVNEVGGGRGYNGLPYLLPGINFVFGLP---GETKETYEL--NYEFLK 386
Query: 170 SILLQHGLIFRAI---QVSIL--THNWDRALELALRHK 202
I L GL+ R I QV + T W+R + A +HK
Sbjct: 387 EI-LDEGLLVRRINIRQVVVFPGTPMWERGKKKAEKHK 423
>gnl|CDD|220785 pfam10498, IFT57, Intra-flagellar transport protein 57. Eukaryotic
cilia and flagella are specialised organelles found at
the periphery of cells of diverse organisms.
Intra-flagellar transport (IFT) is required for the
assembly and maintenance of eukaryotic cilia and
flagella, and consists of the bidirectional movement of
large protein particles between the base and the distal
tip of the organelle. IFT particles contain multiple
copies of two distinct protein complexes, A and B, which
contain at least 6 and 11 protein subunits. IFT57 is
part of complex B but is not, however, required for the
core subunits to stay associated. This protein is known
as Huntington-interacting protein-1 in humans.
Length = 355
Score = 27.7 bits (62), Expect = 6.3
Identities = 22/70 (31%), Positives = 31/70 (44%), Gaps = 10/70 (14%)
Query: 182 IQVSILTHN--WDRALELALRHKTHIDTVLYQRKKYLDN--------LEKIETNEKFLRL 231
++V+I T W LE + K I L + K+YL LEKI + EK L
Sbjct: 203 LKVTIKTDAKDWRSHLEQMHQLKKAISKSLPETKQYLKKLSQDLSKALEKISSREKHLNN 262
Query: 232 QSEVIMSGLR 241
Q E ++ R
Sbjct: 263 QLEQLVQEYR 272
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
0.323 0.135 0.403
Gapped
Lambda K H
0.267 0.0638 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,365,616
Number of extensions: 1181075
Number of successful extensions: 1061
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1061
Number of HSP's successfully gapped: 20
Length of query: 244
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 150
Effective length of database: 6,768,326
Effective search space: 1015248900
Effective search space used: 1015248900
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 (22.0 bits)
S2: 58 (26.3 bits)