RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5058
(377 letters)
>gnl|CDD|214485 smart00044, CYCc, Adenylyl- / guanylyl cyclase, catalytic domain.
Present in two copies in mammalian adenylyl cyclases.
Eubacterial homologues are known. Two residues (Asn,
Arg) are thought to be involved in catalysis. These
cyclases have important roles in a diverse range of
cellular processes.
Length = 194
Score = 252 bits (645), Expect = 1e-83
Identities = 102/193 (52%), Positives = 129/193 (66%), Gaps = 3/193 (1%)
Query: 177 EKHKSDTLLVQMLPPSVAMQLKQTQQ-VPAEYYEAVTVYFSDIVGFTEIAAVSTPLEVVN 235
EK K+D LL Q+LP SVA QLK+ VPAE Y+ VT+ FSDIVGFT + + STP +VVN
Sbjct: 2 EKKKTDRLLDQLLPASVAEQLKRGGSPVPAESYDNVTILFSDIVGFTSLCSTSTPEQVVN 61
Query: 236 FLNSIYKLFDARIEGYDVYKVETIGDSYMVASGLPMKNGDKHVSEIATMALDLLAGSIMF 295
LN +Y FD I+ + YKV+TIGD+YMVASGLP + H IA ALD++
Sbjct: 62 LLNDLYSRFDQIIDRHGGYKVKTIGDAYMVASGLPEEALVDHAELIADEALDMVEELKTV 121
Query: 296 PIPHRKNERVQIRSGMHTGPVVAGIVGTKMPRYCLFGDTVNTASRMESTGEALKIHISAE 355
+ HR+ +++R G+HTGPVVAG+VG +MPRYCLFGDTVN ASRMES G+ +I +S E
Sbjct: 122 LVQHREEG-LRVRIGIHTGPVVAGVVGIRMPRYCLFGDTVNLASRMESAGDPGQIQVSEE 180
Query: 356 VKEAL-DVIGGFR 367
L G F
Sbjct: 181 TYSLLARRGGQFV 193
>gnl|CDD|201086 pfam00211, Guanylate_cyc, Adenylate and Guanylate cyclase catalytic
domain.
Length = 184
Score = 215 bits (549), Expect = 4e-69
Identities = 80/172 (46%), Positives = 109/172 (63%), Gaps = 7/172 (4%)
Query: 203 VPAEYYEAVTVYFSDIVGFTEIAAVSTPLEVVNFLNSIYKLFDARIEGYDVYKVETIGDS 262
V A+ Y+ VT+ F+DIVGFT +++ +P E+V LN +Y FD ++ + VYKV+TIGD+
Sbjct: 1 VYAQSYDNVTILFADIVGFTALSSRHSPEELVRLLNDLYTRFDELLDKHGVYKVKTIGDA 60
Query: 263 YMVASGLPMKNGDKHVSEIATMALDLL--AGSIMFPIPHRKNERVQIRSGMHTGPVVAGI 320
YM ASGLP + H +A MALD+L S+ E +++R G+HTGPVVAG+
Sbjct: 61 YMAASGLP-EPSPAHAQTLAEMALDMLEAIKSVNIH----SFEGLRVRVGIHTGPVVAGV 115
Query: 321 VGTKMPRYCLFGDTVNTASRMESTGEALKIHISAEVKEALDVIGGFRTEHRG 372
+G + PRY ++GDTVN ASRMESTG KIH+S E L F RG
Sbjct: 116 IGARRPRYDVWGDTVNLASRMESTGVPGKIHVSEETYRLLKTREQFEFTERG 167
>gnl|CDD|143636 cd07302, CHD, cyclase homology domain. Catalytic domains of the
mononucleotidyl cyclases (MNC's), also called cyclase
homology domains (CHDs), are part of the class III
nucleotidyl cyclases. This class includes eukaryotic and
prokaryotic adenylate cyclases (AC's) and guanylate
cyclases (GC's). They seem to share a common catalytic
mechanism in their requirement for two magnesium ions to
bind the polyphosphate moiety of the nucleotide.
Length = 177
Score = 182 bits (463), Expect = 2e-56
Identities = 62/163 (38%), Positives = 86/163 (52%), Gaps = 2/163 (1%)
Query: 211 VTVYFSDIVGFTEIAAVSTPLEVVNFLNSIYKLFDARIEGYDVYKVETIGDSYMVASGLP 270
VTV F+DIVGFT ++ P E+V LN + FD IE + +TIGD+ M GLP
Sbjct: 2 VTVLFADIVGFTALSERLGPEELVELLNEYFSAFDEIIERHGGTVDKTIGDAVMAVFGLP 61
Query: 271 MKNGDKHVSEIATMALDLLAGSIMFPIPHRKNERVQIRSGMHTGPVVAGIVGTKMPRYCL 330
+ D H AL++ +++R G+HTGPVVAG+VG++ P Y +
Sbjct: 62 GAHED-HAERAVRAALEMQEALAELNAEREGGPPLRLRIGIHTGPVVAGVVGSERPEYTV 120
Query: 331 FGDTVNTASRMESTGEALKIHISAEVKEALDVIGGFRTEHRGS 373
GDTVN A+R+ES + +I +S E L GF E G
Sbjct: 121 IGDTVNLAARLESLAKPGQILVSEATYELLGD-AGFEFEELGE 162
>gnl|CDD|143637 cd07556, Nucleotidyl_cyc_III, Class III nucleotidyl cyclases.
Class III nucleotidyl cyclases are the largest, most
diverse group of nucleotidyl cyclases (NC's) containing
prokaryotic and eukaryotic proteins. They can be divided
into two major groups; the mononucleotidyl cyclases
(MNC's) and the diguanylate cyclases (DGC's). The
MNC's, which include the adenylate cyclases (AC's) and
the guanylate cyclases (GC's), have a conserved cyclase
homology domain (CHD), while the DGC's have a conserved
GGDEF domain, named after a conserved motif within this
subgroup. Their products, cyclic guanylyl and adenylyl
nucleotides, are second messengers that play important
roles in eukaryotic signal transduction and prokaryotic
sensory pathways.
Length = 133
Score = 116 bits (292), Expect = 1e-31
Identities = 53/144 (36%), Positives = 78/144 (54%), Gaps = 15/144 (10%)
Query: 211 VTVYFSDIVGFTEIAAVSTPLEVVNFLNSIYKLFDARIEGYDVYKVETIGDSYMVASGLP 270
VT+ F+DIVGFT +A P E LN + FD+ I K++TIGD +MV SGL
Sbjct: 2 VTILFADIVGFTSLADALGPDEGDELLNELAGRFDSLIRRSGDLKIKTIGDEFMVVSGL- 60
Query: 271 MKNGDKHVSEIATMALDL---LAGSIMFPIPHRKNERVQIRSGMHTGPVVAGIVGTKMPR 327
H + A D+ ++ V++R G+HTGPVV G++G++ P+
Sbjct: 61 -----DHPAAAVAFAEDMREAVSALNQSEGNP-----VRVRIGIHTGPVVVGVIGSR-PQ 109
Query: 328 YCLFGDTVNTASRMESTGEALKIH 351
Y ++G VN ASRMES +A ++
Sbjct: 110 YDVWGALVNLASRMESQAKAGQVL 133
>gnl|CDD|225025 COG2114, CyaA, Adenylate cyclase, family 3 (some proteins contain
HAMP domain) [Signal transduction mechanisms].
Length = 227
Score = 103 bits (258), Expect = 9e-26
Identities = 49/200 (24%), Positives = 83/200 (41%), Gaps = 14/200 (7%)
Query: 161 QMYAAHLAQKAHELKREKHKSDTLLVQMLPPSVAMQLKQTQQVPAEYYEAVTVYFSDIVG 220
+L K ++ +SD +L L V L + VT+ F+DIVG
Sbjct: 1 IAAVLNLLAKEAKVAAAGLRSDLVLRLYLARVVGRLLAR----GGAGDRRVTLLFADIVG 56
Query: 221 FTEIAAVSTPLEVVNFLNSIYKLFDARIEGYDVYKVETIGDSYMVASGLPMKNGDKHVSE 280
TE++ +V LN + + + V+ IGD ++ G P D
Sbjct: 57 STELSESLGDEALVELLNLYFDAVAEVVARHGGRVVKFIGDGFLAVFGRPSPLED----- 111
Query: 281 IATMALDLLAGSIMFPIPHRKNERVQIRSGMHTGPVVAGIVGTKMPRYCLFGDTVNTASR 340
A L ++ P+ + E +++R G+HTG VV G G Y + G VN A+R
Sbjct: 112 -AVACALDLQLALRNPLARLRRESLRVRIGIHTGEVVVGNTG----GYTVVGSAVNQAAR 166
Query: 341 MESTGEALKIHISAEVKEAL 360
+ES + ++ +S + +
Sbjct: 167 LESLAKPGQVLLSEATYDLV 186
>gnl|CDD|219526 pfam07701, HNOBA, Heme NO binding associated. The HNOBA domain is
found associated with the HNOB domain and pfam00211 in
soluble cyclases and signalling proteins. The HNOB
domain is predicted to function as a heme-dependent
sensor for gaseous ligands, and transduce diverse
downstream signals, in both bacteria and animals.
Length = 209
Score = 40.3 bits (95), Expect = 6e-04
Identities = 16/31 (51%), Positives = 20/31 (64%)
Query: 167 LAQKAHELKREKHKSDTLLVQMLPPSVAMQL 197
L + EL+ EK K+D LL MLP SVA +L
Sbjct: 179 LEEAHRELEEEKKKTDDLLYSMLPKSVANRL 209
>gnl|CDD|234389 TIGR03903, TOMM_kin_cyc, TOMM system kinase/cyclase fusion protein.
This model represents proteins of 1350 in length, in
multiple species of Burkholderia, in Acidovorax avenae
subsp. citrulli AAC00-1 and Delftia acidovorans SPH-1,
and in multiple copies in Sorangium cellulosum, in
genomic neighborhoods that include a
cyclodehydratase/docking scaffold fusion protein
(TIGR03882) and a member of the thiazole/oxazole
modified metabolite (TOMM) precursor family TIGR03795.
It has a kinase domain in the N-terminal 300 amino
acids, followed by a cyclase homology domain, followed
by regions without named domain definitions. It is a
probable bacteriocin-like metabolite biosynthesis
protein [Cellular processes, Toxin production and
resistance].
Length = 1266
Score = 31.0 bits (70), Expect = 1.2
Identities = 20/60 (33%), Positives = 30/60 (50%), Gaps = 12/60 (20%)
Query: 304 RVQIRSGMHTGPVVA---GIVGTKMPRYCLFGDTVNTASRMESTGEALKIHISAEVKEAL 360
RV+I +G+HTG V+A G G T N A RM++ E +I +S ++ L
Sbjct: 385 RVEIAAGIHTGLVLAQAPHASG---------GTTPNAAVRMQAQAEPGQILVSEAARKLL 435
>gnl|CDD|220628 pfam10198, Ada3, Histone acetyltransferases subunit 3. Ada3 is a
family of proteins conserved from yeasts to humans. It
is an essential component of the Ada transcriptional
coactivator (alteration/deficiency in activation)
complex. Ada3 plays a key role in linking histone
acetyltransferase-containing complexes to p53 (tumour
suppressor protein) thereby regulating p53 acetylation,
stability and transcriptional activation following DNA
damage.
Length = 127
Score = 29.2 bits (66), Expect = 1.7
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 105 ELRKLQRELRSQIKKN 120
ELR+LQ EL+ K N
Sbjct: 40 ELRRLQTELKEVSKVN 55
>gnl|CDD|145928 pfam03040, CemA, CemA family. Members of this family are probable
integral membrane proteins. Their molecular function is
unknown. CemA proteins are found in the inner envelope
membrane of chloroplasts but not in the thylakoid
membrane. A cyanobacterial member of this family has
been implicated in CO2 transport, but is probably not a
CO2 transporter itself. They are predicted to be
haem-binding however this has not been proven
experimentally.
Length = 230
Score = 29.8 bits (68), Expect = 2.1
Identities = 19/86 (22%), Positives = 39/86 (45%), Gaps = 11/86 (12%)
Query: 69 LREFRILREQIQMNNPISRSGETAIEYFDL-MAKFTDELRKLQRELRSQIKKNVEADLEN 127
L + + E ++++ I S T+++ + + K EL K+ E Q N+ D+
Sbjct: 58 LEKLQEFEELLELDELIKESPPTSLQELRIEIHKKAIELAKIYNEESIQAILNLLTDI-- 115
Query: 128 ANNQEYVGIAILILVLMVS--PIIIL 151
+ AIL ++L++ + IL
Sbjct: 116 ------ISFAILSVLLILGKEELAIL 135
>gnl|CDD|222874 PHA02557, 22, prohead core protein; Provisional.
Length = 271
Score = 29.3 bits (66), Expect = 3.2
Identities = 9/29 (31%), Positives = 18/29 (62%)
Query: 94 EYFDLMAKFTDELRKLQRELRSQIKKNVE 122
E D++A+ +EL +++ EL ++NV
Sbjct: 138 EKVDVVAEMEEELDEMEEELNELFEENVA 166
>gnl|CDD|132771 cd06861, PX_Vps5p, The phosphoinositide binding Phox Homology
domain of yeast sorting nexin Vps5p. The PX domain is
a phosphoinositide (PI) binding module present in many
proteins with diverse functions. Sorting nexins (SNXs)
make up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system.
The PX domain of SNXs binds PIs and targets the protein
to PI-enriched membranes. SNXs differ from each other
in PI-binding specificity and affinity, and the
presence of other protein-protein interaction domains,
which help determine subcellular localization and
specific function in the endocytic pathway. Vsp5p is
the yeast counterpart of human SNX1 and is part of the
retromer complex, which functions in the
endosome-to-Golgi retrieval of vacuolar protein sorting
receptor Vps10p, the Golgi-resident membrane protein
A-ALP, and endopeptidase Kex2. The PX domain of Vps5p
binds phosphatidylinositol-3-phosphate (PI3P). Similar
to SNX1, Vps5p contains a Bin/Amphiphysin/Rvs (BAR)
domain, which detects membrane curvature, C-terminal to
the PX domain. Both domains have been shown to
determine the specific membrane-targeting of SNX1.
Length = 112
Score = 28.1 bits (63), Expect = 3.6
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 2/25 (8%)
Query: 62 KEAFQV--RLREFRILREQIQMNNP 84
+F V R R+FR L Q+Q N+P
Sbjct: 34 VSSFSVLRRYRDFRWLYRQLQNNHP 58
>gnl|CDD|216841 pfam02006, DUF137, Protein of unknown function DUF137. This family
of archaeal proteins has no known function.
Length = 178
Score = 28.7 bits (65), Expect = 3.9
Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 8/46 (17%)
Query: 83 NPISRSGETA--------IEYFDLMAKFTDELRKLQRELRSQIKKN 120
NP+SR+ TA + + EL+K RE +I N
Sbjct: 119 NPLSRTARTATITIVDNITRAIPNLTELAKELKKADREELEKIVDN 164
>gnl|CDD|226440 COG3930, COG3930, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 434
Score = 28.7 bits (64), Expect = 6.2
Identities = 22/97 (22%), Positives = 33/97 (34%), Gaps = 21/97 (21%)
Query: 26 LAARFRAVDQALESATTWPVIKVPPYNGGNESVIANKEAFQVRLREFR---------ILR 76
LA R A L+ A V G ++AF LR +R LR
Sbjct: 305 LANRVLACAAMLDGADFLDVFHFLTREHG----FDREDAFNNVLRVYRGGGFTKDAIYLR 360
Query: 77 EQIQMNNPISRS--------GETAIEYFDLMAKFTDE 105
I + + + G+ A E+F +M + D
Sbjct: 361 GFILILDHLQLGGALDPLWMGKIAAEHFRVMQELVDR 397
>gnl|CDD|213909 TIGR04296, PEFG-CTERM, PEFG-CTERM domain. This putative protein
sorting/processing domain occurs about ten times per
genome in members of the Thaumarchaeota. Its putative
handling protein, a member of the
archaeosortase/exosortase protein family, is exceptional
in having a Ser rather than Cys at the putative active
site. The highly conserved motif resembles the PEF-CTERM
protein sorting domain of family TIGR03024, but
membership does not overlap.
Length = 30
Score = 25.1 bits (56), Expect = 6.4
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 132 EYVGIAILILVLMVSPIIIL 151
E+ IA+LIL + + II+L
Sbjct: 4 EFGTIALLILAVAIISIILL 23
>gnl|CDD|212129 cd11664, LamB_YcsF_like_2, uncharacterized proteins similar to the
Aspergillus nidulans lactam utilization protein LamB.
This bacterial subfamily of the LamB/YbgL family,
contains many well conserved uncharacterized proteins.
Although their molecular function is unknown, those
proteins show high sequence similarity to the
Aspergillus nidulans lactam utilization protein LamB,
which might be required for conversion of exogenous
2-pyrrolidinone to endogenous GABA.
Length = 238
Score = 27.8 bits (62), Expect = 9.5
Identities = 24/80 (30%), Positives = 40/80 (50%), Gaps = 10/80 (12%)
Query: 195 MQLKQTQQVPAEYYEAVTVY--FSDIVGFTEIAAVSTPLEVVNFLNSIYKL-----FDAR 247
+ +T Q+ AE+ + + + D+VGF +TP E+VN + +Y+L F AR
Sbjct: 43 NIMDRTVQLAAEHGVGIGAHPGYRDLVGFGRRHIAATPEELVN--DILYQLGALREF-AR 99
Query: 248 IEGYDVYKVETIGDSYMVAS 267
G + V+ G YM A+
Sbjct: 100 RHGVSLQHVKPHGALYMHAA 119
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 0.132 0.370
Gapped
Lambda K H
0.267 0.0763 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,116,990
Number of extensions: 1863751
Number of successful extensions: 2115
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2103
Number of HSP's successfully gapped: 39
Length of query: 377
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 279
Effective length of database: 6,590,910
Effective search space: 1838863890
Effective search space used: 1838863890
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: 60 (26.8 bits)