RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16109
(129 letters)
>gnl|CDD|205524 pfam13344, Hydrolase_6, Haloacid dehalogenase-like hydrolase.
This family is part of the HAD superfamily.
Length = 101
Score = 28.9 bits (66), Expect = 0.31
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDL 35
A LK+ KK+LV+ + RE LE+
Sbjct: 68 TAAADYLKERKF-GKKVLVIGSEGLREELEEA 98
>gnl|CDD|223401 COG0324, MiaA, tRNA delta(2)-isopentenylpyrophosphate transferase
[Translation, ribosomal structure and biogenesis].
Length = 308
Score = 29.1 bits (66), Expect = 0.61
Identities = 17/80 (21%), Positives = 35/80 (43%), Gaps = 13/80 (16%)
Query: 51 STPEHLLNVIEESDVFSKKQ-----VQEIERYLHQHKARVFVG-----IRKLL-GLIDMA 99
P HL+++ + ++ +S + + I+ L + K + VG ++ LL GL +
Sbjct: 57 GVPHHLIDIRDPTESYSAAEFQRDALAAIDDILARGKLPILVGGTGLYLKALLEGLSLLP 116
Query: 100 RQIEENYRVMKFLTKLEDEG 119
E R + +L + G
Sbjct: 117 EADPEVRR--RLEAELAELG 134
>gnl|CDD|240082 cd04731, HisF, The cyclase subunit of imidazoleglycerol phosphate
synthase (HisF). Imidazole glycerol phosphate synthase
(IGPS) catalyzes the fifth step of histidine
biosynthesis, the formation of the imidazole ring. IGPS
converts
N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-
carboxamide ribonucleotide (PRFAR) to imidazole glycerol
phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide)
ribonucleotide (AICAR). This conversion involves two
tightly coupled reactions in distinct active sites of
IGPS. The two catalytic domains can be fused, like in
fungi and plants, or peformed by a heterodimer
(HisH-glutaminase and HisF-cyclase), like in bacteria.
Length = 243
Score = 28.6 bits (65), Expect = 0.83
Identities = 13/63 (20%), Positives = 26/63 (41%), Gaps = 15/63 (23%)
Query: 34 DLKILSKFSAVLHVP-----NLSTPEHLLNVIEESDV----------FSKKQVQEIERYL 78
DL+++ S+ +++P PEH + EE F + + E++ YL
Sbjct: 181 DLELIRAVSSAVNIPVIASGGAGKPEHFVEAFEEGGADAALAASIFHFGEYTIAELKEYL 240
Query: 79 HQH 81
+
Sbjct: 241 AER 243
>gnl|CDD|223896 COG0826, COG0826, Collagenase and related proteases
[Posttranslational modification, protein turnover,
chaperones].
Length = 347
Score = 28.0 bits (63), Expect = 1.2
Identities = 10/56 (17%), Positives = 21/56 (37%), Gaps = 4/56 (7%)
Query: 64 DVFSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLEDEG 119
FS + + E H +V+V + + ++E R + L +L +
Sbjct: 44 LNFSVEDLAEAVELAHSAGKKVYV----AVNTLLHNDELETLERYLDRLVELGVDA 95
>gnl|CDD|182824 PRK10903, PRK10903, peptidyl-prolyl cis-trans isomerase A (rotamase
A); Provisional.
Length = 190
Score = 27.9 bits (62), Expect = 1.4
Identities = 12/37 (32%), Positives = 18/37 (48%)
Query: 88 GIRKLLGLIDMARQIEENYRVMKFLTKLEDEGCLDMG 124
G+R G I MAR +++ +F + D LD G
Sbjct: 104 GLRNTRGTIAMARTADKDSATSQFFINVADNAFLDHG 140
>gnl|CDD|220533 pfam10034, Dpy19, Q-cell neuroblast polarisation. Dyp-19, formerly
known as DUF2211, is a transmembrane domain family that
is required to orient the neuroblast cells, QR and QL
accurately on the anterior-posterior axis: QL and QR are
born in the same anterior-posterior position, but
polarise and migrate left-right asymmetrically, QL
migrating towards the posterior and QR migrating towards
the anterior. It is also required, with unc-40, to
express mab-5 correctly in the Q cell descendants. The
Dpy-19 protein derives from the C. elegans DUMPY mutant.
Length = 637
Score = 26.9 bits (60), Expect = 3.2
Identities = 6/23 (26%), Positives = 12/23 (52%)
Query: 65 VFSKKQVQEIERYLHQHKARVFV 87
++S+K +E+ R L K +
Sbjct: 556 IYSRKPAEEVYRTLDSLKVNYLI 578
>gnl|CDD|152165 pfam11729, Capsid-VNN, nodavirus capsid protein. The capsid or
coat protein of this family is expressed in Nodaviridae,
that are ssRNA positive-strand viruses, with no DNA
stage. These viruses are the causative agents of viral
nervous necrosis in marine fish.
Length = 340
Score = 26.9 bits (59), Expect = 3.4
Identities = 12/38 (31%), Positives = 24/38 (63%), Gaps = 1/38 (2%)
Query: 19 KLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHL 56
+ ++LC + +V+ ++ +L ++S L VP+L PE L
Sbjct: 182 RFILLCVGNNTDVV-NVSVLCRWSVRLSVPSLERPEQL 218
>gnl|CDD|172376 PRK13855, PRK13855, type IV secretion system protein VirB10;
Provisional.
Length = 376
Score = 26.8 bits (59), Expect = 4.1
Identities = 11/17 (64%), Positives = 12/17 (70%)
Query: 71 VQEIERYLHQHKARVFV 87
V EI+R L Q ARVFV
Sbjct: 229 VGEIQRGLQQGDARVFV 245
>gnl|CDD|178697 PLN03152, PLN03152, hypothetical protein; Provisional.
Length = 241
Score = 26.4 bits (58), Expect = 4.4
Identities = 10/38 (26%), Positives = 13/38 (34%)
Query: 11 KKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVP 48
+ PR K L C S R+ + L S P
Sbjct: 16 QNPNPRKPKPLSRCGASRRDFILHTASLCASSLAAQNP 53
>gnl|CDD|219540 pfam07730, HisKA_3, Histidine kinase. This is the dimerisation
and phosphoacceptor domain of a sub-family of histidine
kinases. It shares sequence similarity with pfam00512
and pfam07536.
Length = 64
Score = 24.9 bits (55), Expect = 5.1
Identities = 11/38 (28%), Positives = 19/38 (50%)
Query: 1 MTLQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKIL 38
+ L+ R LL ++P ++ L RE L +L+ L
Sbjct: 22 LQLELARRLLARDPEEAREQLDEIRELAREALAELRRL 59
>gnl|CDD|238805 cd01571, NAPRTase_B, Nicotinate phosphoribosyltransferase
(NAPRTase), subgroup B. Nicotinate
phosphoribosyltransferase catalyses the formation of
NAMN and PPi from 5-phosphoribosy -1-pyrophosphate
(PRPP) and nicotinic acid, this is the first, and also
rate limiting, reaction in the NAD salvage synthesis.
This salvage pathway serves to recycle NAD degradation
products.
Length = 302
Score = 26.1 bits (58), Expect = 5.3
Identities = 16/76 (21%), Positives = 24/76 (31%), Gaps = 10/76 (13%)
Query: 15 PRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEESDVFSKKQVQEI 74
P + + L T E E LK L L TP V + ++E+
Sbjct: 182 PEDVPRIALIDTFNDEKEEALKAAKALGDKLDGVRLDTPSSRRGV-------FRYLIREV 234
Query: 75 ERYLHQH---KARVFV 87
L ++FV
Sbjct: 235 RWALDIRGYKHVKIFV 250
>gnl|CDD|173748 cd07853, STKc_NLK, Catalytic domain of the Serine/Threonine
Kinase, Nemo-Like Kinase. Serine/Threonine Kinases
(STKs), Nemo-Like Kinase (NLK) subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The NLK 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. Mitogen-activated protein
kinases (MAPKs) are important mediators of cellular
responses to extracellular signals. NLK is an atypical
MAPK that is not regulated by a MAPK kinase. It
functions downstream of the MAPK kinase kinase Tak1,
which also plays a role in activating the JNK and p38
MAPKs. The Tak1/NLK pathways are regulated by Wnts, a
family of secreted proteins that is critical in the
control of asymmetric division and cell polarity. NLK
can phosphorylate transcription factors from the
TCF/LEF family, inhibiting their ability to activate
the transcription of target genes. In prostate cancer
cells, NLK is involved in regulating androgen
receptor-mediated transcription and its expression is
altered during cancer progression.
Length = 372
Score = 26.2 bits (58), Expect = 5.4
Identities = 21/63 (33%), Positives = 29/63 (46%), Gaps = 13/63 (20%)
Query: 7 RVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKF------SA--VLHVPNLSTPEHLLN 58
RV LKK P + L SC+ V +LK+L F SA +L P++ E +
Sbjct: 27 RVALKKMPNVFQNL-----VSCKRVFRELKMLCFFKHDNVLSALDILQPPHIDPFEEIYV 81
Query: 59 VIE 61
V E
Sbjct: 82 VTE 84
>gnl|CDD|239433 cd03317, NAAAR, N-acylamino acid racemase (NAAAR), an octameric
enzyme that catalyzes the racemization of N-acylamino
acids. NAAARs act on a broad range of N-acylamino acids
rather than amino acids. Enantiopure amino acids are of
industrial interest as chiral building blocks for
antibiotics, herbicides, and drugs. NAAAR is a member of
the enolase superfamily, characterized by the presence
of an enolate anion intermediate which is generated by
abstraction of the alpha-proton of the carboxylate
substrate by an active site residue and is stabilized by
coordination to the essential Mg2+ ion.
Length = 354
Score = 26.0 bits (58), Expect = 6.1
Identities = 16/55 (29%), Positives = 29/55 (52%), Gaps = 10/55 (18%)
Query: 64 DVFSKKQVQEIERYLHQHKARVFVGI--------RKLLGLIDMARQIEENYRVMK 110
D+++K Q Q + +YL + + VG+ +LL I+ R +EE Y+ +K
Sbjct: 105 DLYAKAQGQSLAQYLGGTRDSIPVGVSIGIQDDVEQLLKQIE--RYLEEGYKRIK 157
>gnl|CDD|200514 cd11253, Sema_3E, The Sema domain, a protein interacting module, of
semaphorin 3E (Sema3E). Sema3E is a secreted molecule
implicated in axonal path finding and inhibition of
developmental and postischemic angiogenesis. It is also
highly expressed in metastatic cancer cells. Sema3E
signaling, through its high affinity functional receptor
Plexin D1, drives cancer cell invasiveness and
metastatic spreading. Sema3E is a member of the class 3
semaphorin family of proteins. Semaphorins are
regulatory molecules in the development of the nervous
system and in axonal guidance. They also play important
roles in other biological processes, such as
angiogenesis, immune regulation, respiration systems and
cancer. The Sema domain is located at the N-terminus and
contains four disulfide bonds formed by eight conserved
cysteine residues. It serves as a receptor-recognition
and -binding module.
Length = 471
Score = 26.0 bits (57), Expect = 6.9
Identities = 17/49 (34%), Positives = 29/49 (59%), Gaps = 2/49 (4%)
Query: 77 YLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKF-LTKLEDEGCLDMG 124
L +++ R+FVG R LL + + R I NY+ + + T+L+ E C+ G
Sbjct: 14 LLDEYQERLFVGGRDLLYSLSLER-ISANYKEIHWPSTQLQVEDCIMKG 61
>gnl|CDD|131900 TIGR02853, spore_dpaA, dipicolinic acid synthetase, A subunit.
This predicted Rossman fold-containing protein is the A
subunit of dipicolinic acid synthetase as found in most,
though not all, endospore-forming low-GC Gram-positive
bacteria; it is absent in Clostridium. The B subunit is
represented by TIGR02852. This protein is also known as
SpoVFA [Cellular processes, Sporulation and
germination].
Length = 287
Score = 25.8 bits (57), Expect = 8.2
Identities = 16/47 (34%), Positives = 19/47 (40%), Gaps = 4/47 (8%)
Query: 72 QEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLEDE 118
I R ARVFVG R D+AR E KLE++
Sbjct: 164 MTIARTFSALGARVFVGARSSA---DLARITEMGLIPFPL-NKLEEK 206
>gnl|CDD|205228 pfam13047, DUF3907, Protein of unknown function (DUF3907). This
family of proteins is functionally uncharacterized.
This family of proteins is found in bacteria. Proteins
in this family are approximately 160 amino acids in
length. There is a conserved AYTG sequence motif.
Length = 148
Score = 25.3 bits (56), Expect = 9.2
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 61 EESDVFSKKQVQEIERYLHQH 81
E++ F KK V EIE YL++
Sbjct: 3 EQTGEFLKKVVTEIEDYLNET 23
>gnl|CDD|220271 pfam09507, CDC27, DNA polymerase subunit Cdc27. This protein forms
the C subunit of DNA polymerase delta. It carries the
essential residues for binding to the Pol1 subunit of
polymerase alpha, from residues 293-332, which are
characterized by the motif D--G--VT, referred to as the
DPIM motif. The first 160 residues of the protein form
the minimal domain for binding to the B subunit, Cdc1,
of polymerase delta, the final 10 C-terminal residues,
362-372, being the DNA sliding clamp, PCNA, binding
motif.
Length = 427
Score = 25.6 bits (56), Expect = 9.6
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 107 RVMKFLTKLEDEGCL 121
RVMK T ++EG L
Sbjct: 356 RVMKKKTFKDEEGYL 370
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 0.138 0.386
Gapped
Lambda K H
0.267 0.0879 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,605,350
Number of extensions: 603864
Number of successful extensions: 683
Number of sequences better than 10.0: 1
Number of HSP's gapped: 681
Number of HSP's successfully gapped: 41
Length of query: 129
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 43
Effective length of database: 7,123,158
Effective search space: 306295794
Effective search space used: 306295794
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 (21.9 bits)
S2: 53 (23.9 bits)