RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5929
(286 letters)
>gnl|CDD|218123 pfam04516, CP2, CP2 transcription factor. This family represents a
conserved region in the CP2 transcription factor family.
Length = 237
Score = 161 bits (409), Expect = 1e-48
Identities = 57/156 (36%), Positives = 85/156 (54%), Gaps = 15/156 (9%)
Query: 16 LTYLNQGQSYELKL-----KQDCGVKCLLMSVIRVSFHDRRLQYTEREQMCVWRAAHPGH 70
LTYLN+GQ+Y + L + SV+RV F + + + + +W+A G
Sbjct: 62 LTYLNKGQAYSISLLDTAPPLKGLQPVKVRSVVRVVFEEEKQRSKPAKCWQLWKARQRGG 121
Query: 71 --RILE-VDLPLSYGIHDVLQDSATVNSVQFNWDPNK-ETGVYIKVNCISTEFTPKKHGG 126
R LE VD+ S G + L + A+ N+ W PN+ E ++I+VNC+ST+F+ K G
Sbjct: 122 KQRALEIVDIKQSVGTIENL-EEASFNAFSVTWTPNESECKIFIRVNCLSTDFSSSK--G 178
Query: 127 EKGVPFRIQVDTFVQDT---THRHLHSASCQVKVFK 159
KGVP R+Q+DT+ + T H A CQVKVF+
Sbjct: 179 VKGVPLRLQIDTYDISSSPGTEEPAHRAYCQVKVFR 214
>gnl|CDD|163423 TIGR03711, acc_sec_asp3, accessory Sec system protein Asp3. This
protein is designated Asp3 because, along with SecY2,
SecA2, and other proteins it is part of the accessory
Sec system. The system is involved in the export of
serine-rich glycoproteins important for virulence in a
number of Gram-positive species, including
Streptococcus gordonii and Staphylococcus aureus. This
protein family is assigned to transport rather than
glycosylation function, but the specific molecular role
is unknown [Protein fate, Protein and peptide secretion
and trafficking, Cellular processes, Pathogenesis].
Length = 135
Score = 28.9 bits (65), Expect = 1.5
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 11 KSKSDLTYLNQGQSYELKLKQDCGVKCLLMSV-IRVSFHDRRLQYTE 56
++ L L +GQ+Y+L L D SV ++++F DR Q E
Sbjct: 53 RTVPSLPLLKRGQTYKLSLNADAS---PEGSVYLKITFFDR--QGEE 94
>gnl|CDD|205728 pfam13550, Phage-tail_3, Putative phage tail protein. This
putative domain is found in the large gene transfer
agent protein. These produce defective phage like
particles. This domain is similar to other phage-tail
protein families.
Length = 164
Score = 29.2 bits (66), Expect = 1.6
Identities = 11/37 (29%), Positives = 15/37 (40%), Gaps = 1/37 (2%)
Query: 43 IRVSFHDRRLQYTEREQMCVWRAAHPGHRILEVDLPL 79
+RV + D Y R A G R+ V+LP
Sbjct: 69 VRVRYIDPANDYQAAVVE-ARRPAGIGRRVSTVELPG 104
>gnl|CDD|176552 cd08610, GDPD_GDE6, Glycerophosphodiester phosphodiesterase domain
of mammalian glycerophosphodiester phosphodiesterase
GDE6 and similar proteins. This subfamily corresponds
to the glycerophosphodiester phosphodiesterase domain
(GDPD) present in mammalian GDE6 (also known as
glycerophosphodiester phosphodiesterase
domain-containing protein 4 (GDPD4)) and their metazoan
homologs. Mammalian GDE6 is a transmembrane protein
predominantly expressed in the spermatocytes of testis.
Although the specific physiological function of
mammalian GDE6 has not been elucidated, its different
pattern of tissue distribution suggests it might play a
critical role in the completion of meiosis during male
germ cell differentiation.
Length = 316
Score = 29.8 bits (67), Expect = 1.7
Identities = 19/62 (30%), Positives = 23/62 (37%), Gaps = 16/62 (25%)
Query: 56 EREQMCVWRAAHPGHRILEVDLPLSY----------------GIHDVLQDSATVNSVQFN 99
E M +A G LE D+ LSY I +V +SA N FN
Sbjct: 37 ENTMMSFEKAIEHGAHGLETDVTLSYDGVPFLMHDFTLKRTTNIGEVQPESACENPAFFN 96
Query: 100 WD 101
WD
Sbjct: 97 WD 98
>gnl|CDD|235945 PRK07139, PRK07139, amidase; Provisional.
Length = 439
Score = 29.6 bits (67), Expect = 2.0
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 80 SYGIHDVLQDSATVNSVQFNWDPNKETGVYIKVNCISTEFTPKK 123
+Y H+V D+ ++ V F D N T V +K+N + + PKK
Sbjct: 179 AYFTHNV-NDAIILSKVLFGKDENDLTSVDVKINNVK-KTKPKK 220
>gnl|CDD|212502 cd11643, Precorrin-6A-synthase, Precorrin-6A synthase, the
cobalamin biosynthesis enzyme CobF. Precorrin-6A
synthase participates in the pathway toward the
biosynthesis of cobalamin (vitamin B12). There are two
distinct cobalamin biosynthetic pathways in bacteria.
The aerobic pathway requires oxygen, and cobalt is
inserted late in the pathway; the anaerobic pathway
does not require oxygen, and cobalt insertion is the
first committed step towards cobalamin synthesis. This
model represents CobF, the precorrin-6A synthase, an
enzyme specific to the aerobic pathway. After
precorrin-4 is methylated at C-11 by CobM to produce
precorrin-5, CobF catalyzes the removal of the extruded
acyl group in the subsequent step, and the addition of
a methyl group at C-1. The product of this reaction is
precorrin-6A, which gets reduced by an NADH-dependent
reductase to yield precorrin-6B. This family includes
enzymes in GC-rich Gram-positive bacteria, alpha
proteobacteria and Pseudomonas-related species.
Length = 247
Score = 29.1 bits (66), Expect = 2.3
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 57 REQMCVWRAAHPGHRILEVDLP 78
R ++C PG+R++EVD P
Sbjct: 44 RREICARHLTAPGYRVVEVDDP 65
>gnl|CDD|237188 PRK12745, PRK12745, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 28.4 bits (64), Expect = 3.8
Identities = 18/58 (31%), Positives = 23/58 (39%), Gaps = 16/58 (27%)
Query: 220 VIEV--GQIRKQLQFRTTTAISKER---------MVWGRWHEVEDLAVAVVGNLSGDF 266
V EV G I+ + TA + + RW E ED+A AV SGD
Sbjct: 185 VYEVRPGLIKTDM-----TAPVTAKYDALIAKGLVPMPRWGEPEDVARAVAALASGDL 237
>gnl|CDD|239869 cd04404, RhoGAP-p50rhoGAP, RhoGAP-p50rhoGAP: RhoGAP
(GTPase-activator protein [GAP] for Rho-like small
GTPases) domain of p50RhoGAP-like proteins; p50RhoGAP,
also known as RhoGAP-1, contains a C-terminal RhoGAP
domain and an N-terminal Sec14 domain which binds
phosphatidylinositol 3,4,5-trisphosphate
(PtdIns(3,4,5)P3). It is ubiquitously expressed and
preferentially active on Cdc42. This subgroup also
contains closely related ARHGAP8. Small GTPases cluster
into distinct families, and all act as molecular
switches, active in their GTP-bound form but inactive
when GDP-bound. The Rho family of GTPases activates
effectors involved in a wide variety of developmental
processes, including regulation of cytoskeleton
formation, cell proliferation and the JNK signaling
pathway. GTPases generally have a low intrinsic GTPase
hydrolytic activity but there are family-specific groups
of GAPs that enhance the rate of GTP hydrolysis by
several orders of magnitude.
Length = 195
Score = 27.7 bits (62), Expect = 5.2
Identities = 15/38 (39%), Positives = 21/38 (55%), Gaps = 3/38 (7%)
Query: 154 QVKVFKVSFLHKTSHNKI---MTLPNLAFLLGHSLLWA 188
QV + + FL + S + MT NLA + G +LLWA
Sbjct: 130 QVLKYLIKFLVQVSAHSDQNKMTNSNLAVVFGPNLLWA 167
>gnl|CDD|236578 PRK09583, PRK09583, mycothiol-dependent maleylpyruvate isomerase;
Reviewed.
Length = 241
Score = 27.7 bits (62), Expect = 5.8
Identities = 13/41 (31%), Positives = 16/41 (39%), Gaps = 7/41 (17%)
Query: 238 ISKERMVWGRWHEVE----DLAVAVVGNLSGDFDDNFTEGL 274
+ +VW R EVE DL G D + F E L
Sbjct: 133 VPAAELVWMRLREVEIHHVDLG---AGYTFADLPEVFVERL 170
>gnl|CDD|236823 PRK11021, PRK11021, putative transporter; Provisional.
Length = 410
Score = 27.6 bits (62), Expect = 8.1
Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 4/28 (14%)
Query: 174 LPNLAFLL-GHSLLWAWLLLSRETVTVC 200
+P LA L+ G++ LWAW LL + +
Sbjct: 22 VPALAALVAGNNSLWAWPLL---ILLIF 46
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
0.322 0.135 0.424
Gapped
Lambda K H
0.267 0.0748 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,002,074
Number of extensions: 1262655
Number of successful extensions: 850
Number of sequences better than 10.0: 1
Number of HSP's gapped: 844
Number of HSP's successfully gapped: 14
Length of query: 286
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 190
Effective length of database: 6,679,618
Effective search space: 1269127420
Effective search space used: 1269127420
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: 58 (26.1 bits)