RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5318
(176 letters)
>gnl|CDD|222279 pfam13639, zf-RING_2, Ring finger domain.
Length = 46
Score = 70.1 bits (172), Expect = 6e-17
Identities = 18/44 (40%), Positives = 27/44 (61%)
Query: 98 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQ 141
+C +C ++F E V LPC H +H C++ WL+ TCP+CR
Sbjct: 2 ECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCRA 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 = 57.1 bits (138), Expect = 7e-12
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 3/47 (6%)
Query: 98 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWL-QLHGTCPICRQTL 143
+C +C E+F E V LPC H + CI+ WL TCP+CR +
Sbjct: 1 ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45
>gnl|CDD|227827 COG5540, COG5540, RING-finger-containing ubiquitin ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 374
Score = 59.6 bits (144), Expect = 5e-11
Identities = 22/71 (30%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 74 PLSTDKIKQIPVAHITKAQIDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLH 133
P +T K P++ + D ++C++C F ++ +R LPCDH +H C++ WL +
Sbjct: 301 PTTTTKGSLKPLSIERAVEADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGY 360
Query: 134 G-TCPICRQTL 143
CP+CR +
Sbjct: 361 SNKCPVCRTAI 371
>gnl|CDD|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger).
Length = 45
Score = 50.6 bits (121), Expect = 2e-09
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 2/47 (4%)
Query: 95 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQ 141
L+C +C + + V PC H + CI +L+ CPICR
Sbjct: 1 EELECPICLDLLR--DPVVLTPCGHVFCRECILRYLKKKSKCPICRT 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 = 46.7 bits (111), Expect = 6e-08
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 99 CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPIC 139
C +C E++ + LPC H + CI WL+ TCPIC
Sbjct: 1 CPICLEEY--LKDPVILPCGHTFCRSCIRKWLESGNNTCPIC 40
>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 = 44.0 bits (104), Expect = 1e-06
Identities = 15/43 (34%), Positives = 18/43 (41%), Gaps = 11/43 (25%)
Query: 98 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICR 140
C V W C H +H CI WL+ TCP+CR
Sbjct: 42 DCPVVW-----------GECGHAFHLHCISRWLKTRNTCPLCR 73
>gnl|CDD|227568 COG5243, HRD1, HRD ubiquitin ligase complex, ER membrane component
[Posttranslational modification, protein turnover,
chaperones].
Length = 491
Score = 46.1 bits (109), Expect = 2e-06
Identities = 18/55 (32%), Positives = 29/55 (52%), Gaps = 10/55 (18%)
Query: 99 CSVCWEQF----------TLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTL 143
C++C ++ LD ++LPC H H C++ WL+ TCPICR+ +
Sbjct: 290 CTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV 344
>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 = 39.4 bits (92), Expect = 3e-05
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 3/42 (7%)
Query: 99 CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL-HGTCPIC 139
C +C E + V LPC H + + CI WL+ + TCP+C
Sbjct: 1 CPICLE--EPKDPVTILPCGHLFCSKCILSWLESGNVTCPLC 40
>gnl|CDD|227521 COG5194, APC11, Component of SCF ubiquitin ligase and
anaphase-promoting complex [Posttranslational
modification, protein turnover, chaperones / Cell
division and chromosome partitioning].
Length = 88
Score = 40.2 bits (94), Expect = 4e-05
Identities = 16/53 (30%), Positives = 22/53 (41%), Gaps = 11/53 (20%)
Query: 90 KAQIDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQT 142
+ + +C V W C+H +H CI WL G CP+ RQT
Sbjct: 38 QFGMTPGDECPVVWGV-----------CNHAFHDHCIYRWLDTKGVCPLDRQT 79
>gnl|CDD|227544 COG5219, COG5219, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 1525
Score = 42.7 bits (100), Expect = 4e-05
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 10/57 (17%)
Query: 92 QIDSNLQCSVCWEQFTLDEAVRKLP------CDHFYHTPCIEPWLQLHG--TCPICR 140
+ + +C++C+ LD R LP C + +HT C+ W CP+CR
Sbjct: 1465 KFSGHEECAICY--SVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCR 1519
>gnl|CDD|128780 smart00504, Ubox, Modified RING finger domain. Modified RING
finger domain, without the full complement of
Zn2+-binding ligands. Probable involvement in
E2-dependent ubiquitination.
Length = 63
Score = 36.1 bits (84), Expect = 7e-04
Identities = 11/23 (47%), Positives = 12/23 (52%)
Query: 125 CIEPWLQLHGTCPICRQTLHSES 147
IE WL HGT P+ Q L E
Sbjct: 27 AIEKWLLSHGTDPVTGQPLTHED 49
>gnl|CDD|222944 PHA02929, PHA02929, N1R/p28-like protein; Provisional.
Length = 238
Score = 38.2 bits (89), Expect = 0.001
Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 7/54 (12%)
Query: 98 QCSVCWEQFTLDEAVRK-----LP-CDHFYHTPCIEPWLQLHGTCPICRQTLHS 145
+C++C E+ D+ ++ L C+H + CI+ W + TCP+CR S
Sbjct: 176 ECAICMEK-VYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS 228
>gnl|CDD|193335 pfam12861, zf-Apc11, Anaphase-promoting complex subunit 11 RING-H2
finger. Apc11 is one of the subunits of the
anaphase-promoting complex or cyclosome. The APC
subunits are cullin family proteins with ubiquitin
ligase activity. Polyubiquitination marks proteins for
degradation by the 26S proteasome and is carried out by
a cascade of enzymes that includes ubiquitin-activating
enzymes (E1s), ubiquitin-conjugating enzymes (E2s), and
ubiquitin ligases (E3s). Apc11 acts as an E3 enzyme and
is responsible for recruiting E2s to the APC and for
mediating the subsequent transfer of ubiquitin to APC
substrates in vivo. In Saccharomyces cerevisiae this
RING-H2 finger protein defines the minimal ubiquitin
ligase activity of the APC, and the integrity of the
RING-H2 finger is essential for budding yeast cell
viability.
Length = 85
Score = 35.5 bits (82), Expect = 0.002
Identities = 16/48 (33%), Positives = 20/48 (41%), Gaps = 14/48 (29%)
Query: 98 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQ---LHGTCPICRQT 142
C + W + C H +H CI WL G CP+CRQT
Sbjct: 44 DCPLVWGK-----------CKHNFHMHCILKWLATETSKGLCPMCRQT 80
>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 = 37.7 bits (87), Expect = 0.002
Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 3/52 (5%)
Query: 91 AQIDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQT 142
+D++L+C +C + F + C H + + CI L CP+CR
Sbjct: 21 YPLDTSLRCHICKDFF---DVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAE 69
>gnl|CDD|227719 COG5432, RAD18, RING-finger-containing E3 ubiquitin ligase [Signal
transduction mechanisms].
Length = 391
Score = 36.2 bits (83), Expect = 0.005
Identities = 19/77 (24%), Positives = 33/77 (42%), Gaps = 12/77 (15%)
Query: 65 NQMDGSGPPPLSTDKIKQIPVAHITKAQIDSNLQCSVCWEQFTLDEAVRKL-PCDHFYHT 123
N++D + P + KI + +DS L+C +C + + + C H + +
Sbjct: 1 NELDATDPSDWNQTKIPSL-------KGLDSMLRCRICDCRIS----IPCETTCGHTFCS 49
Query: 124 PCIEPWLQLHGTCPICR 140
CI L CP+CR
Sbjct: 50 LCIRRHLGTQPFCPVCR 66
>gnl|CDD|222454 pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RING finger).
Length = 49
Score = 31.6 bits (72), Expect = 0.020
Identities = 16/48 (33%), Positives = 21/48 (43%), Gaps = 5/48 (10%)
Query: 95 SNLQCSVCWEQFTLDEAVRKLPCDHF-YHTPCIEPWLQLHGTCPICRQ 141
+ C +C E+ V LPC H C + L+ CPICRQ
Sbjct: 1 EDDLCVICLER---PRNVVFLPCGHLCLCEECAK-RLRSKKKCPICRQ 44
>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 = 31.5 bits (72), Expect = 0.029
Identities = 17/59 (28%), Positives = 22/59 (37%), Gaps = 7/59 (11%)
Query: 83 IPVAHITKAQIDSNLQCSVCWEQFTLDEAV-RKLPCDHFYHTPCIEPWLQLHGT--CPI 138
+P AH S C + E T +E LPC H Y +E + G CP
Sbjct: 1 LPYAHHFH----SIFVCPISKEVMTDEENPPVMLPCGHVYSRKALEKLAKNGGKFKCPY 55
>gnl|CDD|204746 pfam11793, FANCL_C, FANCL C-terminal domain. This domain is found
at the C-terminus of the Fancl protein in humans which
is the putative E3 ubiquitin ligase subunit of the FA
complex (Fanconi anaemia). Eight subunits of the Fanconi
anaemia gene products form a multisubunit nuclear
complex which is required for mono-ubiquitination of a
downstream FA protein, FANCD2.
Length = 70
Score = 29.3 bits (66), Expect = 0.26
Identities = 13/68 (19%), Positives = 27/68 (39%), Gaps = 16/68 (23%)
Query: 97 LQCSVCWEQFTLDEAVRKLPCDH-----FYHTPCIEPWLQ-----------LHGTCPICR 140
++C +C+ + + CD+ +H C+ WL+ GTCP C+
Sbjct: 3 IECGICYAYRLDGGEIPDISCDNPKCGLPFHIACLYEWLRTLRDSRQSFNVSFGTCPYCK 62
Query: 141 QTLHSESA 148
+ + +
Sbjct: 63 AKISVKFS 70
>gnl|CDD|222878 PHA02562, 46, endonuclease subunit; Provisional.
Length = 562
Score = 30.4 bits (69), Expect = 0.56
Identities = 17/81 (20%), Positives = 24/81 (29%), Gaps = 34/81 (41%)
Query: 77 TDKIKQI------PVAHITK-----AQIDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPC 125
TD++ + P A + K A+I S + EQF Y
Sbjct: 240 TDELLNLVMDIEDPSAALNKLNTAAAKIKSKI------EQFQKVI--------KMYEK-- 283
Query: 126 IEPWLQLHGTCPICRQTLHSE 146
G CP C Q +
Sbjct: 284 -------GGVCPTCTQQISEG 297
>gnl|CDD|224589 COG1675, TFA1, Transcription initiation factor IIE, alpha subunit
[Transcription].
Length = 176
Score = 29.6 bits (67), Expect = 0.61
Identities = 13/59 (22%), Positives = 24/59 (40%), Gaps = 19/59 (32%)
Query: 94 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLH-SESAESL 151
++ C C +++ DEA+ +L TCP C + L +S+E +
Sbjct: 111 NNYYVCPNCHVKYSFDEAM------------------ELGFTCPKCGEDLEEYDSSEEI 151
>gnl|CDD|130848 TIGR01788, Glu-decarb-GAD, glutamate decarboxylase. This model
represents the pyridoxal phosphate-dependent glutamate
(alpha) decarboxylase found in bacteria (low and hi-GC
gram positive, proteobacteria and cyanobacteria),
plants, fungi and at least one archaon (Methanosarcina).
The product of the enzyme is gamma-aminobutyrate (GABA).
Length = 431
Score = 29.3 bits (66), Expect = 1.2
Identities = 9/27 (33%), Positives = 14/27 (51%), Gaps = 2/27 (7%)
Query: 99 CSVCWEQFT--LDEAVRKLPCDHFYHT 123
VCWE+F D +R++P D +
Sbjct: 147 VQVCWEKFARYFDVELREVPMDPGRYV 173
>gnl|CDD|218885 pfam06080, DUF938, Protein of unknown function (DUF938). This
family consists of several hypothetical proteins from
both prokaryotes and eukaryotes. The function of this
family is unknown.
Length = 201
Score = 27.4 bits (61), Expect = 4.0
Identities = 23/81 (28%), Positives = 29/81 (35%), Gaps = 3/81 (3%)
Query: 16 KRTRRTLSASVGVSLANPEFAPLLPHFEGNPGDYAWGREGLDAIVTQLLNQMDGSGPPPL 75
K T R L + G FAPLLP+ P D +I Q + PPL
Sbjct: 24 KTTERVLEIASGTGQHAVFFAPLLPNLTWQPSDPD--PNLRGSIAAWADQQGLRNLRPPL 81
Query: 76 STDKIKQI-PVAHITKAQIDS 95
D + PV A D+
Sbjct: 82 HLDVTRPPWPVEAPAPASYDA 102
>gnl|CDD|220589 pfam10129, OpgC_C, OpgC protein. This domain, found in various
hypothetical and OpgC prokaryotic proteins. It is likely
to act as an acyltransferase enzyme.
Length = 358
Score = 26.4 bits (59), Expect = 8.1
Identities = 13/44 (29%), Positives = 18/44 (40%), Gaps = 4/44 (9%)
Query: 12 WLSSKRTRRTLSASVGVSLANPEFAPLLPHFEGNPGDY----AW 51
WL + L+ SV + LA F LP + G + AW
Sbjct: 153 WLLRRGPWLVLALSVLLWLAAQLFGWNLPAYPSGGGWFFNPFAW 196
>gnl|CDD|215162 PLN02288, PLN02288, mannose-6-phosphate isomerase.
Length = 394
Score = 26.6 bits (59), Expect = 8.2
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 48 DYAWGREGLDAIVTQLLNQMDGS 70
+Y WGR G ++ V +L GS
Sbjct: 10 NYDWGRIGSESEVARLAAANSGS 32
>gnl|CDD|235582 PRK05729, valS, valyl-tRNA synthetase; Reviewed.
Length = 874
Score = 26.6 bits (60), Expect = 8.2
Identities = 10/22 (45%), Positives = 13/22 (59%), Gaps = 6/22 (27%)
Query: 99 CSVCW--EQFTLDE----AVRK 114
S W E+FT+DE AVR+
Sbjct: 136 ASCDWSRERFTMDEGLSKAVRE 157
>gnl|CDD|220669 pfam10272, Tmpp129, Putative transmembrane protein precursor. This
is a family of proteins conserved from worms to humans.
The proteins are purported to be transmembrane
protein-precursors but the function is unknown.
Length = 356
Score = 26.6 bits (59), Expect = 8.4
Identities = 7/16 (43%), Positives = 7/16 (43%)
Query: 127 EPWLQLHGTCPICRQT 142
E WL CP CR
Sbjct: 332 ETWLSSKCPCPTCRAK 347
>gnl|CDD|112657 pfam03854, zf-P11, P-11 zinc finger.
Length = 50
Score = 24.4 bits (53), Expect = 9.7
Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 6/48 (12%)
Query: 97 LQCSVCWEQFTLDEAVRKLPC-DHFYHTPCIEPWLQLHGTCPICRQTL 143
C CW V C DH+ C++ L + CPIC++ L
Sbjct: 3 YNCKSCWFAD--KNLVT---CSDHYLCLRCLQLLLSVSERCPICKKPL 45
>gnl|CDD|176247 cd08287, FDH_like_ADH3, formaldehyde dehydrogenase (FDH)-like.
This group contains proteins identified as alcohol
dehydrogenases and glutathione-dependant formaldehyde
dehydrogenases (FDH) of the zinc-dependent/medium chain
alcohol dehydrogenase family. The MDR family uses
NAD(H) as a cofactor in the interconversion of alcohols
and aldehydes, or ketones. FDH converts formaldehyde
and NAD to formate and NADH. The initial step in this
process the spontaneous formation of a
S-(hydroxymethyl)glutathione adduct from formaldehyde
and glutathione, followed by FDH-mediated oxidation (and
detoxification) of the adduct to S-formylglutathione.
The medium chain alcohol dehydrogenase family (MDR) has
a NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The N-terminal region typically has an
all-beta catalytic domain. These proteins typically form
dimers (typically higher plants, mammals) or tetramers
(yeast, bacteria), and have 2 tightly bound zinc atoms
per subunit.
Length = 345
Score = 26.1 bits (58), Expect = 9.9
Identities = 12/28 (42%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 134 GTCPICRQTLHSESAESLGPAGAGGPGG 161
GTCP CR + S G GA GG
Sbjct: 90 GTCPFCRAGFTT-SCVHGGFWGAFVDGG 116
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
0.318 0.135 0.434
Gapped
Lambda K H
0.267 0.0768 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,753,868
Number of extensions: 762461
Number of successful extensions: 703
Number of sequences better than 10.0: 1
Number of HSP's gapped: 696
Number of HSP's successfully gapped: 34
Length of query: 176
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 86
Effective length of database: 6,945,742
Effective search space: 597333812
Effective search space used: 597333812
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 (21.7 bits)
S2: 56 (25.3 bits)