RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9201
(264 letters)
>gnl|CDD|198176 cd09920, SH2_Cbl-b_TKB, Src homology 2 (SH2) domain found in the
Cbl-b TKB domain. SH2 found in the Cbl-b TKB domain.
The Cbl (for Casitas B-lineage lymphoma) family of E3
ubiquitin ligases contains three members Cbl, Cbl-b and
Cbl-c. The founding member Cbl was discovered first as
the oncogenic protein v-Cbl, a Gag-fusion transforming
protein of Cas NS-1 retrovirus, which causes pre- and
pro-B lymphomas in mice. The N-terminus of the Cbl
proteins is composed of a tyrosine kinase-binding (TKB)
domain, also called phosphotyrosine binding (PTB)
domain, a short linker region and the RING-type zinc
finger. In addition, Cbl and Cbl-b contain a leucine
zipper motif and a proline-rich domain in the
C-terminus. The TKB domain consists of a four-helix
bundle (4H), a calcium-binding EF hand and a divergent
SH2 domain. Cbl-b plays a role in early hematopoietic
development and is a negative regulator of T-cell
receptor, B-cell receptor and high affinity
immunoglobulin epsilon receptor signal transduction
pathways. It also negatively regulates insulin-like
growth factor 1 signaling during muscle atrophy caused
by unloading and is involved in EGFR ubiquitination and
internalization. Diseases associated with defects in
Cbl-b include: multiple sclerosis, autoimmune diseases,
including type 1 diabetes, and a craniofacial phenotype.
In general SH2 domains are involved in signal
transduction. They typically bind pTyr-containing
ligands via two surface pockets, a pTyr and hydrophobic
binding pocket, allowing proteins with SH2 domains to
localize to tyrosine phosphorylated sites.
Length = 97
Score = 115 bits (291), Expect = 4e-33
Identities = 61/99 (61%), Positives = 66/99 (66%), Gaps = 20/99 (20%)
Query: 84 VTHLDANNFLT--SLQAQLY--------YVFRLSCTRLGQWAIGYVTADGDILQTIPQNK 133
VTH FLT ++A+L YVFRLSCTRLGQWAIGYVTADG ILQTIPQNK
Sbjct: 8 VTHPGYMAFLTYDEVKARLQKFRDKPGSYVFRLSCTRLGQWAIGYVTADGKILQTIPQNK 67
Query: 134 SLCQALLDGYREGLSGLIYSILRSYLYPDGRNVNPELSW 172
SLCQAL+DG REG YLYPDGR NP+LS
Sbjct: 68 SLCQALIDGSREGF----------YLYPDGRLDNPDLSG 96
Score = 35.5 bits (82), Expect = 0.004
Identities = 7/40 (17%), Positives = 15/40 (37%), Gaps = 2/40 (5%)
Query: 190 ELYCEMGSTFQLCKICAENDK-DIRIEPCGHLLCTPCLTS 228
++ + LC+ + + + P G L P L+
Sbjct: 58 KILQTIPQNKSLCQALIDGSREGFYLYPDGRLDN-PDLSG 96
>gnl|CDD|190413 pfam02762, Cbl_N3, CBL proto-oncogene N-terminus, SH2-like domain.
Cbl is an adaptor protein that binds EGF receptors (or
other tyrosine kinases) and SH3 domains, functioning as
a negative regulator of many signaling pathways. The
N-terminal domain is evolutionarily conserved, and is
known to bind to phosphorylated tyrosine residues. The
so called N-terminal domain is actually 3 structural
domains, of which this is the C-terminal SH2 domain.
Length = 86
Score = 113 bits (284), Expect = 3e-32
Identities = 49/69 (71%), Positives = 55/69 (79%), Gaps = 10/69 (14%)
Query: 102 YVFRLSCTRLGQWAIGYVTADGDILQTIPQNKSLCQALLDGYREGLSGLIYSILRSYLYP 161
Y+FRLSCTRLGQWAIGYVTADG ILQTIPQNKSL QALL+G++EG YLYP
Sbjct: 28 YIFRLSCTRLGQWAIGYVTADGKILQTIPQNKSLIQALLEGHKEGF----------YLYP 77
Query: 162 DGRNVNPEL 170
DGR+ NP+L
Sbjct: 78 DGRDQNPDL 86
>gnl|CDD|215715 pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING finger). The
C3HC4 type zinc-finger (RING finger) is a cysteine-rich
domain of 40 to 60 residues that coordinates two zinc
ions, and has the consensus sequence:
C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C
where X is any amino acid. Many proteins containing a
RING finger play a key role in the ubiquitination
pathway.
Length = 40
Score = 42.5 bits (100), Expect = 4e-06
Identities = 17/33 (51%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 202 CKICAENDKDI-RIEPCGHLLCTPCLTSWQVSN 233
C IC E KD I PCGHL C+ C+ SW S
Sbjct: 1 CPICLEEPKDPVTILPCGHLFCSKCILSWLESG 33
>gnl|CDD|222454 pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RING finger).
Length = 49
Score = 42.0 bits (99), Expect = 8e-06
Identities = 13/36 (36%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 200 QLCKICAENDKDIRIEPCGHL-LCTPCLTSWQVSNR 234
LC IC E +++ PCGHL LC C + +
Sbjct: 3 DLCVICLERPRNVVFLPCGHLCLCEECAKRLRSKKK 38
>gnl|CDD|238093 cd00162, RING, RING-finger (Really Interesting New Gene) domain, a
specialized type of Zn-finger of 40 to 60 residues that
binds two atoms of zinc; defined by the 'cross-brace'
motif C-X2-C-X(9-39)-C-X(1-3)-
H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved
in mediating protein-protein interactions; identified in
a proteins with a wide range of functions such as viral
replication, signal transduction, and development; has
two variants, the C3HC4-type and a C3H2C3-type (RING-H2
finger), which have different cysteine/histidine
pattern; a subset of RINGs are associated with B-Boxes
(C-X2-H-X7-C-X7-C-X2-C-H-X2-H).
Length = 45
Score = 41.7 bits (98), Expect = 1e-05
Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 202 CKICAEN-DKDIRIEPCGHLLCTPCLTSWQVSNRSR 236
C IC E + + + PCGH+ C C+ W S ++
Sbjct: 2 CPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNT 37
>gnl|CDD|214546 smart00184, RING, Ring finger. E3 ubiquitin-protein ligase
activity is intrinsic to the RING domain of c-Cbl and is
likely to be a general function of this domain; Various
RING fingers exhibit binding activity towards E2
ubiquitin-conjugating enzymes (Ubc' s).
Length = 40
Score = 40.2 bits (94), Expect = 3e-05
Identities = 15/36 (41%), Positives = 17/36 (47%), Gaps = 1/36 (2%)
Query: 202 CKICAEN-DKDIRIEPCGHLLCTPCLTSWQVSNRSR 236
C IC E KD I PCGH C C+ W S +
Sbjct: 1 CPICLEEYLKDPVILPCGHTFCRSCIRKWLESGNNT 36
>gnl|CDD|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger).
Length = 45
Score = 37.5 bits (87), Expect = 2e-04
Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 201 LCKICAENDKDIRIE-PCGHLLCTPCLTSW 229
C IC + +D + PCGH+ C C+ +
Sbjct: 4 ECPICLDLLRDPVVLTPCGHVFCRECILRY 33
>gnl|CDD|178747 PLN03208, PLN03208, E3 ubiquitin-protein ligase RMA2; Provisional.
Length = 193
Score = 38.9 bits (90), Expect = 9e-04
Identities = 16/36 (44%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 202 CKICAENDKDIRIEPCGHLLCTPCLTSWQ-VSNRSR 236
C IC + +D + CGHL C PC+ W SN SR
Sbjct: 21 CNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSR 56
>gnl|CDD|223613 COG0539, RpsA, Ribosomal protein S1 [Translation, ribosomal
structure and biogenesis].
Length = 541
Score = 33.8 bits (78), Expect = 0.073
Identities = 12/44 (27%), Positives = 19/44 (43%), Gaps = 14/44 (31%)
Query: 144 REGLSGLIYSILRSYLYPDGRNVNPELSWEFISTPEDHIKVTQE 187
EG+ GL++ E+SW + P + +KV QE
Sbjct: 298 EEGVEGLVH--------------VSEISWTKKNVPSEVVKVGQE 327
>gnl|CDD|222279 pfam13639, zf-RING_2, Ring finger domain.
Length = 46
Score = 29.7 bits (67), Expect = 0.16
Identities = 10/31 (32%), Positives = 16/31 (51%), Gaps = 3/31 (9%)
Query: 202 CKICAE---NDKDIRIEPCGHLLCTPCLTSW 229
C IC + +++ + PCGH+ CL W
Sbjct: 3 CPICLDEFEPGEEVVVLPCGHVFHKECLDKW 33
>gnl|CDD|227861 COG5574, PEX10, RING-finger-containing E3 ubiquitin ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 271
Score = 32.6 bits (74), Expect = 0.19
Identities = 11/27 (40%), Positives = 13/27 (48%)
Query: 202 CKICAENDKDIRIEPCGHLLCTPCLTS 228
C +C E + PCGHL C CL
Sbjct: 218 CFLCLEEPEVPSCTPCGHLFCLSCLLI 244
>gnl|CDD|227561 COG5236, COG5236, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 493
Score = 30.8 bits (69), Expect = 0.78
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 200 QLCKICAENDKDIRIEPCGHLLCTPC 225
C+ICA + PCGH +C C
Sbjct: 62 MNCQICAGSTTYSARYPCGHQICHAC 87
>gnl|CDD|177429 PHA02604, rI.-1, hypothetical protein; Provisional.
Length = 126
Score = 29.4 bits (66), Expect = 1.0
Identities = 15/62 (24%), Positives = 24/62 (38%), Gaps = 1/62 (1%)
Query: 140 LDGYREGLSGLIYSILRSYLYPDGRNVNPELSWEFISTPEDHI-KVTQEQYELYCEMGST 198
+ + E + LI Y+ GR P L + ++ QE E+Y E+ S
Sbjct: 45 YEFFYEEMPDLIDKFAEQYIGISGRKYKPSLPSASELDTIAFLDELLQEAEEIYKELPSA 104
Query: 199 FQ 200
Q
Sbjct: 105 LQ 106
>gnl|CDD|227827 COG5540, COG5540, RING-finger-containing ubiquitin ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 374
Score = 30.3 bits (68), Expect = 1.0
Identities = 10/36 (27%), Positives = 15/36 (41%), Gaps = 3/36 (8%)
Query: 202 CKICAEN---DKDIRIEPCGHLLCTPCLTSWQVSNR 234
C IC N + +R+ PC H C+ W +
Sbjct: 326 CAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYS 361
>gnl|CDD|165237 PHA02926, PHA02926, zinc finger-like protein; Provisional.
Length = 242
Score = 29.3 bits (65), Expect = 2.0
Identities = 24/97 (24%), Positives = 39/97 (40%), Gaps = 14/97 (14%)
Query: 150 LIYSILRSYL--YPDGRNVNPELSWEFISTPE-DHIKVTQEQYELYCEMGSTFQLCKIC- 205
++ SILR + Y P + E D IK+ + ++Y S + C IC
Sbjct: 120 IVQSILRGLVNWYIANNTYTPNTPNNTTTISELDIIKILDKYEDVY--RVSKEKECGICY 177
Query: 206 -------AENDKDI-RIEPCGHLLCTPCLTSWQVSNR 234
END+ ++ C H+ C C+ W + R
Sbjct: 178 EVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRR 214
>gnl|CDD|206613 pfam14447, Prok-RING_4, Prokaryotic RING finger family 4. RING
finger family domain found sporadically in bacteria. The
finger is fused to an N-terminal alpha-helical domain,
ROT/Trove-like repeats and a C-terminal TerD domain. The
architecture suggests a possible role in an
RNA-processing complex.
Length = 55
Score = 26.6 bits (59), Expect = 2.2
Identities = 8/33 (24%), Positives = 12/33 (36%)
Query: 200 QLCKICAENDKDIRIEPCGHLLCTPCLTSWQVS 232
Q C C + PCGHL+ + +
Sbjct: 8 QPCLFCGTVGTKGVLLPCGHLIPDGTFDGERYN 40
>gnl|CDD|222944 PHA02929, PHA02929, N1R/p28-like protein; Provisional.
Length = 238
Score = 29.0 bits (65), Expect = 2.4
Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 8/40 (20%)
Query: 202 CKICAEN--DKDIR------IEPCGHLLCTPCLTSWQVSN 233
C IC E DK+I+ + C H+ C C+ W+
Sbjct: 177 CAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK 216
>gnl|CDD|235851 PRK06676, rpsA, 30S ribosomal protein S1; Reviewed.
Length = 390
Score = 28.7 bits (65), Expect = 2.9
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 169 ELSWEFISTPEDHIKVTQE 187
ELS E + P + + V QE
Sbjct: 223 ELSHERVEKPSEVVSVGQE 241
>gnl|CDD|227719 COG5432, RAD18, RING-finger-containing E3 ubiquitin ligase [Signal
transduction mechanisms].
Length = 391
Score = 28.5 bits (63), Expect = 4.2
Identities = 8/29 (27%), Positives = 12/29 (41%)
Query: 198 TFQLCKICAENDKDIRIEPCGHLLCTPCL 226
+ C+IC CGH C+ C+
Sbjct: 24 SMLRCRICDCRISIPCETTCGHTFCSLCI 52
>gnl|CDD|177215 MTH00158, ATP8, ATP synthase F0 subunit 8; Provisional.
Length = 32
Score = 25.1 bits (56), Expect = 4.3
Identities = 7/25 (28%), Positives = 15/25 (60%)
Query: 12 IAPLAATTFTLLFSLSFMLFIIFLF 36
++P+ +LF ++F+LF I +
Sbjct: 4 MSPMNWLILFILFLITFILFNILNY 28
>gnl|CDD|191369 pfam05769, DUF837, Protein of unknown function (DUF837). This
family consists of several eukaryotic proteins of
unknown function. One of the family members is a
circulating cathodic antigen (CCA) found in Schistosoma
mansoni (Blood fluke).
Length = 181
Score = 27.5 bits (61), Expect = 5.4
Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 2/80 (2%)
Query: 122 DGDILQTIPQNKSLCQALLDGYREGLSGLIYSILRSYLYPDGRNVNPELSWEFISTPEDH 181
+ I + +NK L +A L+ ++ L LI S R ++ ++ E H
Sbjct: 69 NTQIRELQQENKEL-KASLEEHQHALE-LIMSKYREHMEGLMLASKYNDREPVLALHEQH 126
Query: 182 IKVTQEQYELYCEMGSTFQL 201
KV +EQ E CEM +
Sbjct: 127 SKVVEEQIERICEMADVMKR 146
>gnl|CDD|213793 TIGR03301, PhnW-AepZ, 2-aminoethylphosphonate aminotransferase.
This family includes a number of 2-aminoethylphosphonate
aminotransferases, some of which are indicated to
operate in the catabolism of 2-aminoethylphosphonate
(AEP) and others which are involved in the biosynthesis
of the same compound. The catabolic enzyme (PhnW, ) is
known to use pyruvate:alanine as the transfer partner
and is modeled by the equivalog-level TIGR02326. The
PhnW family is apparently a branch of a larger tree
including genes (AepZ) adjacent to others responsible
for the biosynthesis of phosphonoacetaldehyde. The
identity of the transfer partner is unknown for these
enzymes and considering the reversed flux compared to
PhnW, it may very well be different.
Length = 355
Score = 27.7 bits (62), Expect = 6.1
Identities = 18/71 (25%), Positives = 28/71 (39%), Gaps = 14/71 (19%)
Query: 98 AQLYYVFRLSCTRLGQWAIGYVTADGDILQTIPQNKSLCQALLDGYRE-GLSGLI----- 151
Y F + L A+G + I + + + L+DG R G L+
Sbjct: 238 THTVYAFAQALEEL--------EAEGGVPARIARYRRNRELLVDGLRALGFQPLLPERWQ 289
Query: 152 YSILRSYLYPD 162
I+ S+LYPD
Sbjct: 290 SPIIVSFLYPD 300
>gnl|CDD|225731 COG3190, FliO, Flagellar biogenesis protein [Cell motility and
secretion].
Length = 137
Score = 27.0 bits (60), Expect = 6.7
Identities = 9/37 (24%), Positives = 14/37 (37%)
Query: 13 APLAATTFTLLFSLSFMLFIIFLFSWGLPEFARFQLG 49
A A + SL +L +I +W + R L
Sbjct: 18 ASAALELAQMFGSLILILALILFLAWLVKRLGRAPLF 54
>gnl|CDD|222135 pfam13445, zf-RING_LisH, RING-type zinc-finger, LisH dimerisation
motif. This zinc-finger is the dimerisation motif for
LisH proteins, and is also a typical RING-type of plant
ubiquitin ligases.
Length = 55
Score = 25.4 bits (56), Expect = 7.1
Identities = 9/33 (27%), Positives = 11/33 (33%), Gaps = 4/33 (12%)
Query: 201 LCKICAENDKDIRIEP----CGHLLCTPCLTSW 229
+C I E D P CGH+ L
Sbjct: 12 VCPISKEVMTDEENPPVMLPCGHVYSRKALEKL 44
>gnl|CDD|234721 PRK00302, lnt, apolipoprotein N-acyltransferase; Reviewed.
Length = 505
Score = 27.5 bits (62), Expect = 7.9
Identities = 12/56 (21%), Positives = 21/56 (37%), Gaps = 5/56 (8%)
Query: 11 SIAPLAATTFTLLFSLSFMLFIIFLFSWGLPEFARFQLGLYLPFGDPPLHITLNQP 66
+A L L+ +L ++ +GL +L P +P L + L Q
Sbjct: 177 LLALALIKRRWRLALLALLLLLLAALGYGLR-----RLQWTTPAPEPALKVALVQG 227
>gnl|CDD|107053 PHA01707, dut, 2'-deoxyuridine 5'-triphosphatase.
Length = 158
Score = 26.8 bits (59), Expect = 8.5
Identities = 13/43 (30%), Positives = 22/43 (51%), Gaps = 7/43 (16%)
Query: 164 RNVNPELSWEFISTPEDHIKVTQEQY-------ELYCEMGSTF 199
N+ E+ EFI P +H+ +T ++Y +C + STF
Sbjct: 45 ENMEKEVGDEFIIYPHEHVLLTTKEYIKLPNDIIAFCNLRSTF 87
>gnl|CDD|191187 pfam05087, Rota_VP2, Rotavirus VP2 protein. Rotavirus particles
consist of three concentric proteinaceous capsid layers.
The innermost capsid (core) is made of VP2. The genomic
RNA and the two minor proteins VP1 and VP3 are
encapsidated within this layer. The N-terminus of
rotavirus VP2 is necessary for the encapsidation of VP1
and VP3.
Length = 887
Score = 27.6 bits (61), Expect = 9.0
Identities = 17/81 (20%), Positives = 34/81 (41%), Gaps = 20/81 (24%)
Query: 173 EFISTPEDHIKVTQEQYELYCEMGSTFQLCKICAENDKDIRIEPCGHLLCTPCLTSWQVS 232
E + T E+H K + QYE+ + +F+ + + +DI+ E +
Sbjct: 81 EVLKTKEEHQK--EIQYEILQKTIPSFEPKESILKKLEDIKPEQA------------KKQ 126
Query: 233 NRSRILFYLFYFFSVKEIPLW 253
+ LF F K++P++
Sbjct: 127 TK------LFRLFEPKQLPIY 141
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 0.141 0.453
Gapped
Lambda K H
0.267 0.0635 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,652,776
Number of extensions: 1285939
Number of successful extensions: 2441
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2427
Number of HSP's successfully gapped: 57
Length of query: 264
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 169
Effective length of database: 6,723,972
Effective search space: 1136351268
Effective search space used: 1136351268
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 (21.6 bits)
S2: 58 (26.3 bits)