RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3040
(189 letters)
>gnl|CDD|218056 pfam04388, Hamartin, Hamartin protein. This family includes the
hamartin protein which is thought to function as a
tumour suppressor. The hamartin protein interacts with
the tuberin protein pfam03542. Tuberous sclerosis
complex (TSC) is an autosomal dominant disorder and is
characterized by the presence of hamartomas in many
organs, such as brain, skin, heart, lung, and kidney. It
is caused by mutation either TSC1 or TSC2 tumour
suppressor gene. TSC1 encodes a protein, hamartin,
containing two coiled-coil regions, which have been
shown to mediate binding to tuberin. The TSC2 gene codes
for tuberin pfam03542. These two proteins function
within the same pathway(s) regulating cell cycle, cell
growth, adhesion, and vesicular trafficking.
Length = 667
Score = 215 bits (550), Expect = 6e-67
Identities = 93/189 (49%), Positives = 130/189 (68%), Gaps = 5/189 (2%)
Query: 1 KEPWLVNGLVDYFLASNSLRAVDVLVIIREPHDKFLFDRVAETLRSPSTRLGALTLLGHI 60
+ LVN LVDYFL +NS +A+ +L I+EPHDK+L D++ E L P TRL LTLLGH+
Sbjct: 36 RGQMLVNSLVDYFLETNSQQALHILSSIQEPHDKYLLDKLNECLGKPPTRLPTLTLLGHV 95
Query: 61 VQRQPTWLYKIMSHPTLMKDLLKILKTESDMVEVISALLVLNILLPIIPGLIGSHLTDIF 120
V+RQP WL+KI P L+ LLK LKT++D+V +I+ALLVL LLP+IP HL D+F
Sbjct: 96 VRRQPPWLHKISRTP-LLDSLLKCLKTDTDVVVLITALLVLITLLPMIPQSGKQHLYDLF 154
Query: 121 EVFSRLAAWNSDNPRQLASSHVLHLQVALYALFYQLYGMFPCTFLSYLKQEYNMRCDNVN 180
++F RLA+WN NP H++HL ++Y+LF++LYGM+PC F+SYL+ Y+M+
Sbjct: 155 DIFGRLASWNLQNPGHANDVHLVHLHASVYSLFHRLYGMYPCNFVSYLRSHYSMK----E 210
Query: 181 ACNVFNHTI 189
+ F +
Sbjct: 211 NVDTFQEVV 219
>gnl|CDD|179402 PRK02265, PRK02265, acetoacetate decarboxylase; Provisional.
Length = 246
Score = 28.7 bits (65), Expect = 1.6
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 9/41 (21%)
Query: 88 ESDMVEVISALLVLNILLPIIPG---------LIGSHLTDI 119
E D+ EV+++L N LL IIP L+ +LTDI
Sbjct: 152 ELDLEEVLASLAKPNFLLKIIPHVDGTPRICELVRYYLTDI 192
>gnl|CDD|223337 COG0259, PdxH, Pyridoxamine-phosphate oxidase [Coenzyme
metabolism].
Length = 214
Score = 28.4 bits (64), Expect = 2.0
Identities = 10/33 (30%), Positives = 15/33 (45%)
Query: 124 SRLAAWNSDNPRQLASSHVLHLQVALYALFYQL 156
S++ AW S R +AS L +VA +
Sbjct: 133 SQIGAWASKQSRPIASRAALEAKVAELTAKFAD 165
>gnl|CDD|235555 PRK05679, PRK05679, pyridoxamine 5'-phosphate oxidase; Provisional.
Length = 195
Score = 27.5 bits (62), Expect = 3.3
Identities = 8/32 (25%), Positives = 14/32 (43%)
Query: 124 SRLAAWNSDNPRQLASSHVLHLQVALYALFYQ 155
S++ AW S R ++S L + A +
Sbjct: 114 SQIGAWASKQSRPISSRAALEAKFAEVKAKFA 145
>gnl|CDD|215357 PLN02665, PLN02665, pectinesterase family protein.
Length = 366
Score = 28.1 bits (63), Expect = 3.3
Identities = 10/45 (22%), Positives = 18/45 (40%)
Query: 95 ISALLVLNILLPIIPGLIGSHLTDIFEVFSRLAAWNSDNPRQLAS 139
I A + +++ + P + T I S+L W N + A
Sbjct: 7 IIACAIAALVVLVSPTVSSDDTTPIPADKSQLNQWFQANVKPYAQ 51
>gnl|CDD|177878 PLN02234, PLN02234, 1-deoxy-D-xylulose-5-phosphate synthase.
Length = 641
Score = 27.8 bits (61), Expect = 4.1
Identities = 21/66 (31%), Positives = 30/66 (45%), Gaps = 2/66 (3%)
Query: 27 IIREPHDKFLFDRVAETLRSPSTRLGALTLLG-HIVQRQPTWLYKIMSHPTLMKDL-LKI 84
I R P K+L + + R + G + R PT L ++HP MK+L +K
Sbjct: 24 INRNPSLKYLKPSSMSSTKYSKVRATTFSEKGEYYSNRPPTPLLDTINHPMHMKNLSIKE 83
Query: 85 LKTESD 90
LK SD
Sbjct: 84 LKVLSD 89
>gnl|CDD|227319 COG4986, COG4986, ABC-type anion transport system, duplicated
permease component [Inorganic ion transport and
metabolism].
Length = 523
Score = 27.8 bits (62), Expect = 4.2
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 92 VEVISAL-LVLNILLPIIPGLIGSHLTDIFEVFSRLAAWN 130
V V+ +VL + + PG +G L F VF+ + AWN
Sbjct: 56 VPVLGFFPIVLIFFVYLFPGPLGVELAADFLVFTSV-AWN 94
>gnl|CDD|221172 pfam11701, UNC45-central, Myosin-binding striated muscle assembly
central. The UNC-45 or small muscle protein 1 of
C.elegans is expressed in two forms from different
genomic positions in mammals, as a general tissue
protein UNC-45a and a specific form Unc-45b expressed
only in striated and skeletal muscle. All members carry
up to three amino-terminal tetratricopeptide repeat
(TPR) domains towards their N-terminal, a UCS domain at
the C-terminal that contains a number of Arm repeats
pfam00514 and this central region of approximately 400
residues. Both the general form and the muscle form of
UNC-45 function in myotube formation through cell
fusion. Myofibril formation requires both GC and SM
UNC-45, consistent with the fact that the cytoskeleton
is necessary for the development and maintenance of
organised myofibrils. The S. pombe Rng3p, is crucial for
cell shape, normal actin cytoskeleton, and contractile
ring assembly, and is essential for assembly of the
myosin II-containing progenitors of the contractile
ring. Widespread defects in the cytoskeleton are found
in null mutants of all three fungal proteins. Mammalian
Unc45 is found to act as a specific chaperone during the
folding of myosin and the assembly of striated muscle by
forming a stable complex with the general chaperone
Hsp90. The exact function of this central region is not
known.
Length = 155
Score = 26.8 bits (60), Expect = 4.9
Identities = 21/111 (18%), Positives = 41/111 (36%), Gaps = 8/111 (7%)
Query: 31 PHDKFLFDRVAETLRSPSTRLGALTLLGHIVQRQPTWLYKIMSHPTLMKDLLKILKTESD 90
H L + + R AL +L ++ +++S + ++ L E +
Sbjct: 3 DHLDVLLTSLDPLRVTEEVRSLALLILSKLLDAAKENFTEVIS------EFIESLIDEGE 56
Query: 91 MVEVISALLVLNILLPIIPGLIGS--HLTDIFEVFSRLAAWNSDNPRQLAS 139
+ +I+A+ L L P P + + E L A + QLA+
Sbjct: 57 VDSLINAVSALTALFPGPPDVGATLFLSEGFLESLLPLVARSERRKLQLAA 107
>gnl|CDD|179631 PRK03692, PRK03692, putative UDP-N-acetyl-D-mannosaminuronic acid
transferase; Provisional.
Length = 243
Score = 27.3 bits (61), Expect = 5.2
Identities = 12/37 (32%), Positives = 22/37 (59%), Gaps = 9/37 (24%)
Query: 58 GHIVQRQPT--------WLYKIMSHPTLMKDLLKILK 86
GH V+R P WLY+++S P+ ++ L++L+
Sbjct: 198 GH-VKRAPKIWQNLGLEWLYRLLSQPSRIRRQLRLLR 233
>gnl|CDD|145933 pfam03048, Herpes_UL92, UL92 family. Members of this family, found
in several herpesviruses, include EBV BDLF4, HCMV UL92,
HHV8 31, HSV6 U63. Their function is unknown. The N
terminus of this protein contains 6 conserved cysteines
and histidines that might form a zinc binding domain (A
Bateman pers. obs.).
Length = 192
Score = 26.8 bits (60), Expect = 6.2
Identities = 17/76 (22%), Positives = 29/76 (38%), Gaps = 5/76 (6%)
Query: 76 TLMKDLLKILKTESDMVEVISALLVLNILLPIIPGLIGSHLTDIFEVFSRLAAWNSDNPR 135
+L D+ + EV A+ L P I LI F +FS +
Sbjct: 89 SLKSDVYSYFSRSNVYAEVKQAIFTDGELKPHIEDLIKFTFNHCFHIFS-----EAQKGY 143
Query: 136 QLASSHVLHLQVALYA 151
L S +H+ +++Y+
Sbjct: 144 DLICSLYIHVIISIYS 159
>gnl|CDD|162246 TIGR01197, nramp, NRAMP (natural resistance-associated macrophage
protein) metal ion transporters. This model describes
the Nramp metal ion transporter family. Historically, in
mammals these proteins have been functionally
characterized as proteins involved in the host pathogen
resistance, hence the name - NRAMP. At least two
isoforms Nramp1 and Nramp2 have been identified. However
the exact mechanism of pathogen resistance was unclear,
until it was demonstrated by expression cloning and
electrophysiological techniques that this protein was a
metal ion transporter. It was also independently
demonstrated that a microcytic anemia (mk) locus in
mouse, encodes a metal ion transporter (DCT1 or Nramp2).
The transporter has a broad range of substrate
specificity that include Fe+2, Zn+2, Mn+2, Co+2, Cd+2,
Cu+2, Ni+2 and Pb+2. The uptake of these metal ions is
coupled to proton symport. Metal ions are essential
cofactors in a number of biological process including,
oxidative phosphorylation, gene regulation and metal ion
homeostasis. Nramp1 could confer resistance to infection
in one of the two ways. (1) The uptake of Fe+2 can
produce toxic hydroxyl radicals via Fenton reaction
killing the pathogens in phagosomes or (2) Deplete the
metal ion pools in the phagosome and deprive the
pathogens of metal ions, which is critical for its
survival [Transport and binding proteins, Cations and
iron carrying compounds].
Length = 390
Score = 27.0 bits (60), Expect = 6.7
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 2/42 (4%)
Query: 89 SDMVEVISALLVLNILLPIIPGLIGSHLTDIFEVFSRLAAWN 130
+DM EVI + LN+L IP G +T I +VF L
Sbjct: 93 TDMAEVIGTAIALNLLSH-IPLWGGVLIT-IVDVFLFLFLDK 132
>gnl|CDD|216950 pfam02259, FAT, FAT domain. The FAT domain is named after FRAP,
ATM and TRRAP.
Length = 350
Score = 26.6 bits (59), Expect = 9.1
Identities = 8/68 (11%), Positives = 22/68 (32%), Gaps = 7/68 (10%)
Query: 93 EVISALLVLNILLPIIPGLIGSHLTDIFEVFSRLAAWNSDNPRQLASSHVLHLQVALYAL 152
+ A+ L + +L+ S ++S+++ + + L A
Sbjct: 200 QQQEAIQKLREF-------VSCYLSKPVGSSSDSELLLGLTYEVISSTNLEYFEAKLLAR 252
Query: 153 FYQLYGMF 160
+ G +
Sbjct: 253 CFLKLGEW 260
>gnl|CDD|198407 cd10425, Ephrin-A_RBD, Receptor Binding Domain of Ephrin A.
Ephrins and their receptors EphR play an important role
in cell communication in normal physiology, as well as
in disease pathogenesis. Binding of the ephrin ligand to
EphR requires cell-cell contact, since both molecules
are anchored to the plasma membrane. The resulting
downstream signals occur bidirectionally in both
EphR-expressing cells (forward signaling, depending on
Eph kinase activity) and ephrin-expressing cells
(reverse signaling). Eph signaling controls cell
morphology, adhesion, migration and invasion. Ephrins
can be subdivided into 2 groups, A and B, depending on
their respective receptors EphA or EphB. The nine human
EphA receptors bind to five GPI-linked ephrin-A ligands.
Interactions are promiscuous within each class, and some
Eph receptors can also bind to ephrins of the other
class. All Ephrin As contain a highly conserved
extracellular receptor binding domain described by this
model. Although ephrin As do not have a cytoplasmic tail
(in contrast to ephrin Bs), they are are still capable
of downstream activation of Src family kinases and
phosphoinositide-3-kinases, most likely involving
coreceptors such as neurotrophin receptors.
Length = 130
Score = 25.8 bits (57), Expect = 9.5
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 129 WNSDNPRQLASSHVLHLQVALY 150
WNS NPR L + + +++ Y
Sbjct: 7 WNSSNPRFLRGDYTVQVKINDY 28
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
0.326 0.140 0.427
Gapped
Lambda K H
0.267 0.0804 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,679,379
Number of extensions: 896286
Number of successful extensions: 1238
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1235
Number of HSP's successfully gapped: 25
Length of query: 189
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 98
Effective length of database: 6,901,388
Effective search space: 676336024
Effective search space used: 676336024
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 56 (25.2 bits)