RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9087
(170 letters)
>gnl|CDD|222279 pfam13639, zf-RING_2, Ring finger domain.
Length = 46
Score = 49.7 bits (119), Expect = 4e-09
Identities = 15/35 (42%), Positives = 23/35 (65%)
Query: 134 SCVVCMCDFETSQVLRGLPCSHEFHAKCVDKWLKI 168
C +C+ +FE + + LPC H FH +C+DKWL+
Sbjct: 2 ECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRS 36
>gnl|CDD|227827 COG5540, COG5540, RING-finger-containing ubiquitin ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 374
Score = 50.8 bits (121), Expect = 5e-08
Identities = 18/32 (56%), Positives = 21/32 (65%)
Query: 135 CVVCMCDFETSQVLRGLPCSHEFHAKCVDKWL 166
C +CM +F + LR LPC H FH CVDKWL
Sbjct: 326 CAICMSNFIKNDRLRVLPCDHRFHVGCVDKWL 357
>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 = 42.0 bits (99), Expect = 3e-06
Identities = 17/35 (48%), Positives = 21/35 (60%), Gaps = 2/35 (5%)
Query: 135 CVVCMCDFETSQVLRGLPCSHEFHAKCVDKWLKIG 169
C +C+ +F VL LPC H F C+DKWLK G
Sbjct: 2 CPICLEEFREPVVL--LPCGHVFCRSCIDKWLKSG 34
>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 = 36.3 bits (84), Expect = 3e-04
Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 135 CVVCMCDFETSQVLRGLPCSHEFHAKCVDKWLKIG 169
C +C+ ++ LPC H F C+ KWL+ G
Sbjct: 1 CPICLEEYLK--DPVILPCGHTFCRSCIRKWLESG 33
>gnl|CDD|227544 COG5219, COG5219, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 1525
Score = 38.1 bits (88), Expect = 0.001
Identities = 15/61 (24%), Positives = 25/61 (40%), Gaps = 8/61 (13%)
Query: 115 IESIPSFKFNASKHQSDQTSCVVCMCDFETSQVLRGLP------CSHEFHAKCVDKWLKI 168
++ + +K N + S C +C V R LP C ++FH +C+ KW
Sbjct: 1452 MDLLGLWKKNIDEKFSGHEECAICY--SVLDMVDRSLPSKRCATCKNKFHTRCLYKWFAS 1509
Query: 169 G 169
Sbjct: 1510 S 1510
>gnl|CDD|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger).
Length = 45
Score = 33.6 bits (77), Expect = 0.003
Identities = 11/39 (28%), Positives = 19/39 (48%), Gaps = 2/39 (5%)
Query: 131 DQTSCVVCMCDFETSQVLRGLPCSHEFHAKCVDKWLKIG 169
++ C +C+ VL PC H F +C+ ++LK
Sbjct: 1 EELECPICLDLLRDPVVL--TPCGHVFCRECILRYLKKK 37
>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 = 31.6 bits (72), Expect = 0.036
Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 135 CVVCMCDFETSQVLRGLPCSHEFHAKCVDKWLK 167
C C + V+ G C H FH C+ +WLK
Sbjct: 33 CPECKSPGDDCPVVWG-ECGHAFHLHCISRWLK 64
>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 = 30.5 bits (69), Expect = 0.052
Identities = 12/35 (34%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 135 CVVCMCDFETSQVLRGLPCSHEFHAKCVDKWLKIG 169
C +C+ + + + LPC H F +KC+ WL+ G
Sbjct: 1 CPICLEEPKDPVTI--LPCGHLFCSKCILSWLESG 33
>gnl|CDD|181234 PRK08117, PRK08117, 4-aminobutyrate aminotransferase; Provisional.
Length = 433
Score = 30.8 bits (70), Expect = 0.29
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 89 VENYEALLSLAERLGEAKPRGLNRY 113
V YE++L LAE L E P GL+ +
Sbjct: 82 VIYYESILKLAEELAEITPGGLDCF 106
>gnl|CDD|216158 pfam00860, Xan_ur_permease, Permease family. This family
includes permeases for diverse substrates such as
xanthine, uracil, and vitamin C. However many members
of this family are functionally uncharacterized and may
transport other substrates. Members of this family have
ten predicted transmembrane helices.
Length = 389
Score = 30.3 bits (69), Expect = 0.42
Identities = 9/33 (27%), Positives = 15/33 (45%)
Query: 57 YPGLFHLLAMFSSAPLSPYSQAELGSPDSTETV 89
GL HLLAMF++ + P + + +
Sbjct: 5 LLGLQHLLAMFAATIVVPLLVGDALGLGAEDLA 37
>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 = 28.6 bits (64), Expect = 0.52
Identities = 7/15 (46%), Positives = 10/15 (66%)
Query: 153 CSHEFHAKCVDKWLK 167
C+H FH C+ +WL
Sbjct: 54 CNHAFHDHCIYRWLD 68
>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 = 27.8 bits (62), Expect = 0.91
Identities = 8/14 (57%), Positives = 9/14 (64%)
Query: 153 CSHEFHAKCVDKWL 166
C H FH C+ KWL
Sbjct: 52 CKHNFHMHCILKWL 65
>gnl|CDD|227568 COG5243, HRD1, HRD ubiquitin ligase complex, ER membrane component
[Posttranslational modification, protein turnover,
chaperones].
Length = 491
Score = 28.4 bits (63), Expect = 1.8
Identities = 14/48 (29%), Positives = 21/48 (43%), Gaps = 10/48 (20%)
Query: 130 SDQTSCVVCMCD-FET--SQVLRG-------LPCSHEFHAKCVDKWLK 167
+ +C +CM + F + RG LPC H H C+ WL+
Sbjct: 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLE 332
>gnl|CDD|222827 PHA01635, PHA01635, hypothetical protein.
Length = 231
Score = 27.8 bits (62), Expect = 2.9
Identities = 22/57 (38%), Positives = 30/57 (52%), Gaps = 7/57 (12%)
Query: 66 MFSSAPLSPYSQAELG-----SPDSTETVENY--EALLSLAERLGEAKPRGLNRYEI 115
++S A L+P S+ +G P+S V Y L+SL+ RL E KP LN Y I
Sbjct: 104 LYSLAVLNPPSRYTIGFVFSLPPNSVIHVPEYGFVNLVSLSGRLIEVKPGSLNLYAI 160
>gnl|CDD|200298 TIGR03603, cyclo_dehy_ocin, thiazole/oxazole-forming peptide
maturase, SagC family component. Members of this
protein family include enzymes related to SagC, a
protein involved in thiazole/oxazole cyclodehydration
modifications during biosynthesis of streptolysin S in
Streptococcus pyogenes from the protoxin polypeptide
(product of the sagA gene). Recent evidence suggests
that the YcaO/SagD-like component, not this component,
performs an ATP-dependent cyclodehydration. This protein
family serves as a marker for widely distributed
prokaryotic systems for making a general class of
heterocycle-containing bacteriocins. Note that this
model does not find all possible examples of bacteriocin
biosynthesis cyclodehydratases, an in particular misses
the E. coli plasmid protein McbB of microcin B17
biosynthesis [Cellular processes, Pathogenesis].
Length = 319
Score = 27.9 bits (62), Expect = 3.1
Identities = 20/85 (23%), Positives = 33/85 (38%), Gaps = 13/85 (15%)
Query: 84 DSTETVENYEALLSLAERLGEAKPRGLNRYEIE-SIP--------SFKFNASKHQSDQTS 134
D +T+++YE ++ AE + R LNR +E P F + +T+
Sbjct: 145 DKKDTLKDYEMIIVCAEHGNISLLRELNRLSLEFKKPFVIAFIDGPFGYVGPLLFPPETA 204
Query: 135 CVVCMCDFETSQVLRGLPCSHEFHA 159
C C E + L L + A
Sbjct: 205 CFEC---LER-RQLSHLTDFKLYGA 225
>gnl|CDD|220466 pfam09909, DUF2138, Uncharacterized protein conserved in bacteria
(DUF2138). This domain, found in various hypothetical
prokaryotic proteins, has no known function.
Length = 552
Score = 27.4 bits (61), Expect = 5.0
Identities = 12/46 (26%), Positives = 17/46 (36%), Gaps = 6/46 (13%)
Query: 14 VIGYFPARAPTIEITRVRHHPVPNRSRNSLRRWRGQTLAPSNTYPG 59
VIG + A+AP PV R + W+ + YP
Sbjct: 383 VIGAYEAKAPE------GRLPVTTRQQGEATLWQRPVSSRYGQYPA 422
>gnl|CDD|225938 COG3403, COG3403, Uncharacterized conserved protein [Function
unknown].
Length = 257
Score = 26.8 bits (59), Expect = 5.6
Identities = 8/54 (14%), Positives = 18/54 (33%), Gaps = 1/54 (1%)
Query: 34 PVPNRSRNSLRRWRGQTLAPSNTYPGLFHLLAMFSSAPLSPYSQAELGSPDSTE 87
P+P R +R + + +P + + + +L SP +
Sbjct: 17 PLPAWQRELFEAFREKIGDDRDPFPCIPGRQSFLTDQLRIAVV-GDLRSPSAAX 69
>gnl|CDD|234855 PRK00884, PRK00884, Maf-like protein; Reviewed.
Length = 194
Score = 26.5 bits (59), Expect = 5.8
Identities = 15/50 (30%), Positives = 21/50 (42%), Gaps = 9/50 (18%)
Query: 70 APLSPYSQAELG---------SPDSTETVENYEALLSLAERLGEAKPRGL 110
A SPY +A L +P+ ET E+ L RL + K + L
Sbjct: 7 ASTSPYRRALLEKLQLPFECAAPEVDETPRPGESPRQLVLRLAQEKAQSL 56
>gnl|CDD|215244 PLN02445, PLN02445, anthranilate synthase component I.
Length = 523
Score = 27.0 bits (60), Expect = 6.3
Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 7/40 (17%)
Query: 17 YFPAR-----APTIEI-TRVRHHPVPNRSRNSLRRWRGQT 50
Y AR A + EI TRV+ + + NR RR RG+T
Sbjct: 289 YLQARGCILVASSPEILTRVKKNKIVNRPLAGTRR-RGKT 327
>gnl|CDD|221845 pfam12906, RINGv, RING-variant domain.
Length = 47
Score = 24.7 bits (54), Expect = 7.4
Identities = 11/39 (28%), Positives = 17/39 (43%), Gaps = 6/39 (15%)
Query: 135 CVVCMCDFETSQVLRGLPCS-----HEFHAKCVDKWLKI 168
C +C+ E + L PC H C+++WLK
Sbjct: 1 CRICLEGEEEDEPLI-RPCRCRGSLKYVHQSCLERWLKT 38
>gnl|CDD|236907 PRK11410, PRK11410, hypothetical protein; Provisional.
Length = 561
Score = 26.6 bits (59), Expect = 7.9
Identities = 13/58 (22%), Positives = 21/58 (36%), Gaps = 6/58 (10%)
Query: 2 KLCQLIACTPVKVIGYFPARAPTIEITRVRHHPVPNRSRNSLRRWRGQTLAPSNTYPG 59
L QL+ + IG A+AP PV + + W+ + + YP
Sbjct: 378 ALDQLLGKLFGQNIGAHEAKAPE------GRLPVSQTQQGEAQIWQREVSSRYGQYPK 429
>gnl|CDD|215112 PLN02167, PLN02167, UDP-glycosyltransferase family protein.
Length = 475
Score = 26.3 bits (58), Expect = 9.2
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 90 ENYEALLSLAERLGEAKPRGLNRYE 114
E+YEA + +AER EAK +N +
Sbjct: 201 ESYEAWVEIAERFPEAKGILVNSFT 225
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
0.320 0.133 0.416
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: 8,328,954
Number of extensions: 719357
Number of successful extensions: 705
Number of sequences better than 10.0: 1
Number of HSP's gapped: 703
Number of HSP's successfully gapped: 28
Length of query: 170
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 80
Effective length of database: 6,945,742
Effective search space: 555659360
Effective search space used: 555659360
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 (21.8 bits)
S2: 55 (25.2 bits)