RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6091
(437 letters)
>gnl|CDD|222454 pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RING finger).
Length = 49
Score = 63.9 bits (156), Expect = 2e-13
Identities = 23/43 (53%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 206 ECVICMCDIRDTLILPCRHLCLCHSCADSLRYQANNCPICRAP 248
CVIC+ R+ + LPC HLCLC CA LR + CPICR P
Sbjct: 4 LCVICLERPRNVVFLPCGHLCLCEECAKRLRSK-KKCPICRQP 45
>gnl|CDD|222279 pfam13639, zf-RING_2, Ring finger domain.
Length = 46
Score = 48.5 bits (116), Expect = 6e-08
Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 4/46 (8%)
Query: 206 ECVICMCDI---RDTLILPCRHLCLCHSCADSLRYQANNCPICRAP 248
EC IC+ + + ++LPC H C D +N CP+CRAP
Sbjct: 2 ECPICLDEFEPGEEVVVLPCGH-VFHKECLDKWLRSSNTCPLCRAP 46
>gnl|CDD|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger).
Length = 45
Score = 47.5 bits (113), Expect = 1e-07
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 206 ECVICMCDIRDTLIL-PCRHLCLCHSCADSLRYQANNCPICRA 247
EC IC+ +RD ++L PC H+ C C + + CPICR
Sbjct: 4 ECPICLDLLRDPVVLTPCGHVF-CRECILRYLKKKSKCPICRT 45
>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 = 47.4 bits (113), Expect = 1e-07
Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 3/46 (6%)
Query: 206 ECVICMCDIRD-TLILPCRHLCLCHSCADS-LRYQANNCPICRAPF 249
EC IC+ + R+ ++LPC H+ C SC D L+ N CP+CR P
Sbjct: 1 ECPICLEEFREPVVLLPCGHV-FCRSCIDKWLKSGKNTCPLCRTPI 45
>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 = 38.6 bits (90), Expect = 1e-04
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 3/41 (7%)
Query: 207 CVICMCD-IRDTLILPCRHLCLCHSCADS-LRYQANNCPIC 245
C IC+ + ++D +ILPC H C SC L N CPIC
Sbjct: 1 CPICLEEYLKDPVILPCGHT-FCRSCIRKWLESGNNTCPIC 40
>gnl|CDD|222944 PHA02929, PHA02929, N1R/p28-like protein; Provisional.
Length = 238
Score = 41.7 bits (98), Expect = 3e-04
Identities = 28/97 (28%), Positives = 43/97 (44%), Gaps = 18/97 (18%)
Query: 168 KQKLYVDGLCYLLQEIYGIENKNNEQYKGCEDCEDGGSECVICMCDIRDTL-------IL 220
K K Y L+ I + ++ + Y +D EC ICM + D IL
Sbjct: 147 KGKNYK----KFLKTIPSVLSEYEKLYNRSKD-----KECAICMEKVYDKEIKNMYFGIL 197
Query: 221 P-CRHLCLCHSCADSLRYQANNCPICRAPFRALLQIR 256
C H+ C C D + + N CP+CR PF ++++ R
Sbjct: 198 SNCNHV-FCIECIDIWKKEKNTCPVCRTPFISVIKSR 233
>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 = 34.8 bits (80), Expect = 0.003
Identities = 17/41 (41%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 207 CVICMCDIRD-TLILPCRHLCLCHSCADS-LRYQANNCPIC 245
C IC+ + +D ILPC HL C C S L CP+C
Sbjct: 1 CPICLEEPKDPVTILPCGHLF-CSKCILSWLESGNVTCPLC 40
>gnl|CDD|227827 COG5540, COG5540, RING-finger-containing ubiquitin ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 374
Score = 38.8 bits (90), Expect = 0.004
Identities = 19/51 (37%), Positives = 23/51 (45%), Gaps = 5/51 (9%)
Query: 202 DGGSECVICMCDI---RDTLILPCRHLCLCHSCADS-LRYQANNCPICRAP 248
D G EC ICM + +LPC H C D L +N CP+CR
Sbjct: 321 DKGVECAICMSNFIKNDRLRVLPCDHR-FHVGCVDKWLLGYSNKCPVCRTA 370
>gnl|CDD|227719 COG5432, RAD18, RING-finger-containing E3 ubiquitin ligase [Signal
transduction mechanisms].
Length = 391
Score = 38.1 bits (88), Expect = 0.007
Identities = 22/92 (23%), Positives = 27/92 (29%), Gaps = 15/92 (16%)
Query: 207 CVICMCDIRDTLILPCRHLCLCHSC-ADSLRYQANNCPICRAPFRALLQIRALQKNSSHV 265
C IC C I C H C C L Q CP+CR S
Sbjct: 28 CRICDCRISIPCETTCGH-TFCSLCIRRHLGTQ-PFCPVCREDPC----------ESRLR 75
Query: 266 SETSSDNIPPGYDAV--SLIEALNGPCAVRHP 295
+ S I + L + L C + P
Sbjct: 76 GSSGSREINESHARNRDLLRKVLESLCRLPRP 107
>gnl|CDD|227561 COG5236, COG5236, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 493
Score = 37.7 bits (87), Expect = 0.010
Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 198 EDCEDGGSECVICMCDIRDTLILPCRHLCLCHSCADSLR--YQANNCPICRAPFRALL 253
+D ++ C IC + PC H +CH+CA LR Y CP+CR A++
Sbjct: 55 DDTDEENMNCQICAGSTTYSARYPCGHQ-ICHACAVRLRALYMQKGCPLCRTETEAVV 111
>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 = 30.8 bits (70), Expect = 0.13
Identities = 16/44 (36%), Positives = 20/44 (45%), Gaps = 3/44 (6%)
Query: 206 ECVICMCDIRDTLILPCRHLCLCHSCADSLRYQANNCPICRAPF 249
C+ C ++LPC HL + D RY N CP C PF
Sbjct: 9 PCLFCGTVGTKGVLLPCGHL-IPDGTFDGERY--NGCPFCGTPF 49
>gnl|CDD|146345 pfam03660, PHF5, PHF5-like protein. This family of proteins the
superfamily of PHD-finger proteins. At least one
example, from mouse, may act as a chromatin-associated
protein. The S. pombe ini1 gene is essential, required
for splicing. It is localised in the nucleus, but not
detected in the nucleolus and can be complemented by
human ini1.
Length = 105
Score = 31.5 bits (72), Expect = 0.21
Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 10/52 (19%)
Query: 197 CEDCEDGGSECVICMCDIRDTLILPCRHLCLCHSCADSLRYQANNCPICRAP 248
CE C+ +C IC D+ + P + +C C S N C IC +P
Sbjct: 22 CEKCD---GKCPIC-----DSYVRPTTKVRICDEC--SFGSLGNKCIICGSP 63
>gnl|CDD|178747 PLN03208, PLN03208, E3 ubiquitin-protein ligase RMA2; Provisional.
Length = 193
Score = 31.6 bits (71), Expect = 0.52
Identities = 17/61 (27%), Positives = 26/61 (42%), Gaps = 17/61 (27%)
Query: 203 GGSECVICMCDIRDTLILPCRHLCLCHSCADSLRYQANN----------------CPICR 246
G +C IC+ +RD ++ C HL C C Y +NN CP+C+
Sbjct: 17 GDFDCNICLDQVRDPVVTLCGHL-FCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCK 75
Query: 247 A 247
+
Sbjct: 76 S 76
>gnl|CDD|233043 TIGR00599, rad18, DNA repair protein rad18. All proteins in this
family for which functions are known are involved in
nucleotide excision repair.This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 397
Score = 31.9 bits (72), Expect = 0.71
Identities = 12/47 (25%), Positives = 16/47 (34%), Gaps = 1/47 (2%)
Query: 207 CVICMCDIRDTLILPCRHLCLCHSCADSLRYQANNCPICRAPFRALL 253
C IC ++ C H C C CP+CRA +
Sbjct: 29 CHICKDFFDVPVLTSCSH-TFCSLCIRRCLSNQPKCPLCRAEDQESK 74
>gnl|CDD|227861 COG5574, PEX10, RING-finger-containing E3 ubiquitin ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 271
Score = 31.4 bits (71), Expect = 0.75
Identities = 17/67 (25%), Positives = 25/67 (37%), Gaps = 3/67 (4%)
Query: 183 IYGIENKNNEQYKGCEDCEDGGSECVICMCDIRDTLILPCRHLCLCHSCADSLRY--QAN 240
I +N + G +C +C+ + PC HL C SC +
Sbjct: 194 FQVITKENLSKKNGLPFIPLADYKCFLCLEEPEVPSCTPCGHL-FCLSCLLISWTKKKYE 252
Query: 241 NCPICRA 247
CP+CRA
Sbjct: 253 FCPLCRA 259
>gnl|CDD|227568 COG5243, HRD1, HRD ubiquitin ligase complex, ER membrane component
[Posttranslational modification, protein turnover,
chaperones].
Length = 491
Score = 31.5 bits (71), Expect = 0.98
Identities = 35/173 (20%), Positives = 54/173 (31%), Gaps = 41/173 (23%)
Query: 207 CVICMCDIRDTLI-----------------LPCRHLCLCHSCADSLRYQANNCPICRAPF 249
C ICM D + LPC H L C + + CPICR P
Sbjct: 290 CTICM----DEMFHPDHEPLPRGLDMTPKRLPCGH-ILHLHCLKNWLERQQTCPICRRPV 344
Query: 250 RALLQIRALQKNSSHVSETSSDNIPPGYDAVSLIEALNGPC--AVRHPPLVVSLD--PLA 305
+ + S +V T P D A+ G + + P + + P A
Sbjct: 345 --IFDQSSPTPASPNVRNTQIATQVPNPDNTPTTTAVPGITNSSNQGDPQASTFNGVPNA 402
Query: 306 ECATTAALNRRASA-------------ERSGKGSKVSAPSVTSQTQEGEEKSV 345
+ AA + S+ R + + + PS T T + +
Sbjct: 403 NSSGFAAHTQDLSSVIPGWTMLPIPGTRRISQSTSTTNPSATPTTGDPSNSTY 455
>gnl|CDD|133405 cd04778, HTH_MerR-like_sg2, Helix-Turn-Helix DNA binding domain of
putative transcription regulators from the MerR
superfamily. Putative helix-turn-helix (HTH) MerR-like
transcription regulators (subgroup 2). Based on sequence
similarity, these proteins are predicted to function as
transcription regulators that mediate responses to
stress in eubacteria. They belong to the MerR
superfamily of transcription regulators that promote
transcription of various stress regulons by
reconfiguring the operator sequence located between the
-35 and -10 promoter elements. A typical MerR regulator
is comprised of two distinct domains that harbor the
regulatory (effector-binding) site and the active
(DNA-binding) site. Their N-terminal domains are
homologous and contain a DNA-binding winged HTH motif,
while the C-terminal domains are often dissimilar and
bind specific coactivator molecules such as metal ions,
drugs, and organic substrates.
Length = 219
Score = 30.4 bits (69), Expect = 1.6
Identities = 16/69 (23%), Positives = 28/69 (40%), Gaps = 1/69 (1%)
Query: 248 PFRALLQI-RALQKNSSHVSETSSDNIPPGYDAVSLIEALNGPCAVRHPPLVVSLDPLAE 306
P RA+L + A+++++ V+E D + A +V PLA
Sbjct: 149 PLRAVLDLVAAVRRHADDVAERFVDAVGERIHAREGGLLPRPADVDEIAQVVQRYRPLAR 208
Query: 307 CATTAALNR 315
A A L++
Sbjct: 209 DAVEAELDQ 217
>gnl|CDD|114172 pfam05432, BSP_II, Bone sialoprotein II (BSP-II). Bone
sialoprotein (BSP) is a major structural protein of the
bone matrix that is specifically expressed by
fully-differentiated osteoblasts. The expression of bone
sialoprotein (BSP) is normally restricted to mineralised
connective tissues of bones and teeth where it has been
associated with mineral crystal formation. However, it
has been found that ectopic expression of BSP occurs in
various lesions, including oral and extraoral
carcinomas, in which it has been associated with the
formation of microcrystalline deposits and the
metastasis of cancer cells to bone.
Length = 291
Score = 29.7 bits (66), Expect = 2.7
Identities = 27/142 (19%), Positives = 48/142 (33%), Gaps = 11/142 (7%)
Query: 299 VSLDPLAECATTAALNRRASAERSGKGSKVSAPSVT--SQTQEGEEKSVSDANVPETPDD 356
V+L + A+ + K + ++ EE+ + E ++
Sbjct: 96 VTLGYGGDATPGTGNIGLAALQLPKKAGNAGKKATKEDESDEDEEEEEEEEEEEAEVEEN 155
Query: 357 DSEAEKLSPLLDAATSTQLDRSNSVT----DTDTEYYKPTSAGAEYYGTKPSSATAEYYG 412
+ S ST++D N + + E T A AE + T+ G
Sbjct: 156 EQGTNGTS-----TNSTEVDHGNGSSGGDNGEEGEEESVTEAEAEGTTVAGPTTTSPNGG 210
Query: 413 TKPTSATAEYYGTKPPKIRKTS 434
+PT+ E YGT P K +
Sbjct: 211 FQPTTPPQEVYGTTDPPFGKVT 232
>gnl|CDD|234972 PRK01688, PRK01688, histidinol-phosphate aminotransferase;
Provisional.
Length = 351
Score = 29.9 bits (68), Expect = 2.8
Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 7/46 (15%)
Query: 101 FCQPG---VTFIPSQYEDDELMYNIDKEIIPIAIQCVTTSDDGQED 143
FC+PG + + P Y MY++ E I + I+ V T D+ Q D
Sbjct: 94 FCEPGKDAILYCPPTYG----MYSVSAETIGVEIRTVPTLDNWQLD 135
>gnl|CDD|223970 COG1040, ComFC, Predicted amidophosphoribosyltransferases [General
function prediction only].
Length = 225
Score = 29.3 bits (66), Expect = 3.2
Identities = 10/31 (32%), Positives = 12/31 (38%)
Query: 219 ILPCRHLCLCHSCADSLRYQANNCPICRAPF 249
+L LC C L N CP+C P
Sbjct: 18 LLLLFFPGLCSGCQADLPLIGNLCPLCGLPL 48
>gnl|CDD|219971 pfam08690, GET2, GET complex subunit GET2. This family corresponds
to the GET complex subunit GET2. The GET complex is
involved in the retrieval of ER resident proteins from
the Golgi.
Length = 298
Score = 29.3 bits (66), Expect = 3.3
Identities = 16/65 (24%), Positives = 25/65 (38%), Gaps = 3/65 (4%)
Query: 310 TAALNRRASAERSGKGSKVSAPSVTSQTQEGEEKSVSDANVPETPDDDSEAEKLSPLLDA 369
+A LN+ G K+ + SV E S + A+ TP+ E + P D
Sbjct: 25 SARLNKITG---QGSSVKLVSKSVLDAKPEDNTGSTTSAHDQSTPEIQDILEAIDPPKDE 81
Query: 370 ATSTQ 374
+ S
Sbjct: 82 SESPA 86
>gnl|CDD|221705 pfam12678, zf-rbx1, RING-H2 zinc finger. There are 8 cysteine/
histidine residues which are proposed to be the
conserved residues involved in zinc binding. The
protein, of which this domain is the conserved region,
participates in diverse functions relevant to chromosome
metabolism and cell cycle control.
Length = 73
Score = 27.4 bits (61), Expect = 3.6
Identities = 12/50 (24%), Positives = 17/50 (34%), Gaps = 9/50 (18%)
Query: 197 CEDCEDGGSECVICMCDIRDTLILPCRHLCLCHSCADSLRYQANNCPICR 246
C +C+ G +C + C H C N CP+CR
Sbjct: 33 CPECKSPGDDCPVV--------WGECGH-AFHLHCISRWLKTRNTCPLCR 73
>gnl|CDD|147777 pfam05808, Podoplanin, Podoplanin. This family consists of several
mammalian podoplanin like proteins which are thought to
control specifically the unique shape of podocytes.
Length = 162
Score = 28.7 bits (64), Expect = 4.0
Identities = 15/58 (25%), Positives = 24/58 (41%)
Query: 330 APSVTSQTQEGEEKSVSDANVPETPDDDSEAEKLSPLLDAATSTQLDRSNSVTDTDTE 387
AP V + T+ + + D E D D E K + + TS D++ T T +
Sbjct: 65 APLVPTGTENVTKDHLEDLPTAEGTDHDGEEHKSTTTVTVVTSHSQDKTGDETQTTDK 122
>gnl|CDD|165235 PHA02923, PHA02923, hypothetical protein; Provisional.
Length = 315
Score = 28.3 bits (63), Expect = 7.4
Identities = 26/97 (26%), Positives = 38/97 (39%), Gaps = 15/97 (15%)
Query: 94 KKGASQLFCQPGVTFIPSQYEDDELMYNIDKEIIPIAIQCVTTSDDGQEDQKQCHTTIAV 153
K+G + C +++ PS + Y+ DK I SD QE C+ I +
Sbjct: 133 KRGYKLVMCSISLSYKPSITR---IQYDNDKYI--------DISDS-QEGNNLCYCVITI 180
Query: 154 VDHHADDSYTLKGLKQKLYVDGLCYLLQEIYGIENKN 190
HH D T+ L + G C L+ E G K
Sbjct: 181 DPHHLIDLETICVLVNR---SGKCLLVNEHLGRFRKK 214
>gnl|CDD|237605 PRK14086, dnaA, chromosomal replication initiation protein;
Provisional.
Length = 617
Score = 28.6 bits (64), Expect = 7.8
Identities = 11/35 (31%), Positives = 17/35 (48%)
Query: 403 PSSATAEYYGTKPTSATAEYYGTKPPKIRKTSKSR 437
P + E +ATA+Y+G + TS+SR
Sbjct: 517 PEDSAPEITAAAIMAATADYFGLTVEDLCGTSRSR 551
>gnl|CDD|219419 pfam07462, MSP1_C, Merozoite surface protein 1 (MSP1) C-terminus.
This family represents the C-terminal region of
merozoite surface protein 1 (MSP1) which are found in a
number of Plasmodium species. MSP-1 is a 200-kDa protein
expressed on the surface of the P. vivax merozoite.
MSP-1 of Plasmodium species is synthesised as a
high-molecular-weight precursor and then processed into
several fragments. At the time of red cell invasion by
the merozoite, only the 19-kDa C-terminal fragment
(MSP-119), which contains two epidermal growth
factor-like domains, remains on the surface. Antibodies
against MSP-119 inhibit merozoite entry into red cells,
and immunisation with MSP-119 protects monkeys from
challenging infections. Hence, MSP-119 is considered a
promising vaccine candidate.
Length = 574
Score = 28.4 bits (63), Expect = 9.7
Identities = 33/165 (20%), Positives = 55/165 (33%), Gaps = 16/165 (9%)
Query: 254 QIRALQKNSSHVSETSSDNIPPGYDAV-SLIEALNGPCAVRHPPLVVSLDPLAECATTAA 312
+++ L KN ++ T+ +N P +A+ E L V P A+ A +
Sbjct: 225 ELKELIKNKNYTGNTNPENNPEVNEALEQYKELLPKGTTQEAKVTTVVTPPQADAAPSPL 284
Query: 313 LNRRASAERSGKGSKVSAPS--------------VTSQTQEGEEKSVSDANVPETPDDDS 358
R A + S GS S Q Q +E+ S +P +DD
Sbjct: 285 SVRPAGSSGSASGSTQIPTSGSVLGPGAAATELQQVVQLQNYDEEDDSLVVLPIFGNDDD 344
Query: 359 EAEKLSPLLDA-ATSTQLDRSNSVTDTDTEYYKPTSAGAEYYGTK 402
+ E L + A S ++ S + + Y K
Sbjct: 345 DDEDLDQVATGEAESEEMKNILSAFKNEYDVIYLKPLAGTYKSLK 389
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
0.315 0.131 0.392
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: 21,026,954
Number of extensions: 1938485
Number of successful extensions: 1596
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1581
Number of HSP's successfully gapped: 43
Length of query: 437
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 337
Effective length of database: 6,502,202
Effective search space: 2191242074
Effective search space used: 2191242074
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 (21.5 bits)
S2: 60 (27.1 bits)