RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2200
(248 letters)
>gnl|CDD|178747 PLN03208, PLN03208, E3 ubiquitin-protein ligase RMA2; Provisional.
Length = 193
Score = 86.3 bits (213), Expect = 9e-21
Identities = 38/94 (40%), Positives = 54/94 (57%), Gaps = 14/94 (14%)
Query: 129 DKGQIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQ-------------TCPV 175
D G +DCNICLD +D V+++CGHLFCWPC+H+W N + CPV
Sbjct: 14 DSGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPV 73
Query: 176 CKAAIDKDKVIPVYGRGGSSKTDPRDKVPPRPQG 209
CK+ + + ++P+YGRG + + VP RP G
Sbjct: 74 CKSDVSEATLVPIYGRGQKAPQSGSN-VPSRPSG 106
Score = 40.5 bits (94), Expect = 3e-04
Identities = 19/44 (43%), Positives = 24/44 (54%), Gaps = 5/44 (11%)
Query: 21 DQKKTDGGNDKSQIYDCNICFDTAKDAVISMCGHLF-WLKFFYW 63
D D G D +DCNIC D +D V+++CGHLF W W
Sbjct: 9 DTTLVDSGGD----FDCNICLDQVRDPVVTLCGHLFCWPCIHKW 48
>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 = 51.7 bits (124), Expect = 2e-09
Identities = 19/47 (40%), Positives = 31/47 (65%), Gaps = 3/47 (6%)
Query: 135 DCNICLDTAKD-AVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAI 180
+C ICL+ ++ V+ CGH+FC C+ +WL++ N TCP+C+ I
Sbjct: 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKN--TCPLCRTPI 45
Score = 24.7 bits (54), Expect = 8.5
Identities = 8/22 (36%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 36 DCNICFDTAKD-AVISMCGHLF 56
+C IC + ++ V+ CGH+F
Sbjct: 1 ECPICLEEFREPVVLLPCGHVF 22
>gnl|CDD|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger).
Length = 45
Score = 49.0 bits (117), Expect = 2e-08
Identities = 17/48 (35%), Positives = 29/48 (60%), Gaps = 4/48 (8%)
Query: 132 QIYDCNICLDTAKDAVISM-CGHLFCWPCLHQWLETCPNRQTCPVCKA 178
+ +C ICLD +D V+ CGH+FC C+ ++L+ + CP+C+
Sbjct: 1 EELECPICLDLLRDPVVLTPCGHVFCRECILRYLK---KKSKCPICRT 45
Score = 28.6 bits (64), Expect = 0.42
Identities = 10/25 (40%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 33 QIYDCNICFDTAKDAVISM-CGHLF 56
+ +C IC D +D V+ CGH+F
Sbjct: 1 EELECPICLDLLRDPVVLTPCGHVF 25
>gnl|CDD|227861 COG5574, PEX10, RING-finger-containing E3 ubiquitin ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 271
Score = 52.2 bits (125), Expect = 4e-08
Identities = 20/53 (37%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 134 YDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVI 186
Y C +CL+ + + CGHLFC CL T + CP+C+A + KVI
Sbjct: 216 YKCFLCLEEPEVPSCTPCGHLFCLSCLLISW-TKKKYEFCPLCRAKVYPKKVI 267
Score = 28.7 bits (64), Expect = 2.3
Identities = 8/22 (36%), Positives = 12/22 (54%)
Query: 35 YDCNICFDTAKDAVISMCGHLF 56
Y C +C + + + CGHLF
Sbjct: 216 YKCFLCLEEPEVPSCTPCGHLF 237
>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 = 1e-07
Identities = 21/42 (50%), Positives = 26/42 (61%), Gaps = 3/42 (7%)
Query: 136 CNICLDT-AKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVC 176
C ICL+ KD VI CGH FC C+ +WLE+ TCP+C
Sbjct: 1 CPICLEEYLKDPVILPCGHTFCRSCIRKWLES--GNNTCPIC 40
Score = 24.4 bits (53), Expect = 9.5
Identities = 11/21 (52%), Positives = 12/21 (57%), Gaps = 1/21 (4%)
Query: 37 CNICFDT-AKDAVISMCGHLF 56
C IC + KD VI CGH F
Sbjct: 1 CPICLEEYLKDPVILPCGHTF 21
>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 = 45.9 bits (109), Expect = 2e-07
Identities = 21/42 (50%), Positives = 26/42 (61%), Gaps = 3/42 (7%)
Query: 136 CNICLDTAKDAVISM-CGHLFCWPCLHQWLETCPNRQTCPVC 176
C ICL+ KD V + CGHLFC C+ WLE+ TCP+C
Sbjct: 1 CPICLEEPKDPVTILPCGHLFCSKCILSWLES--GNVTCPLC 40
Score = 27.1 bits (60), Expect = 1.2
Identities = 11/21 (52%), Positives = 13/21 (61%), Gaps = 1/21 (4%)
Query: 37 CNICFDTAKDAVISM-CGHLF 56
C IC + KD V + CGHLF
Sbjct: 1 CPICLEEPKDPVTILPCGHLF 21
>gnl|CDD|222279 pfam13639, zf-RING_2, Ring finger domain.
Length = 46
Score = 45.5 bits (108), Expect = 4e-07
Identities = 19/47 (40%), Positives = 28/47 (59%), Gaps = 6/47 (12%)
Query: 135 DCNICLD---TAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKA 178
+C ICLD ++ V+ CGH+F CL +WL + TCP+C+A
Sbjct: 2 ECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSN---TCPLCRA 45
>gnl|CDD|222454 pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RING finger).
Length = 49
Score = 40.1 bits (94), Expect = 3e-05
Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 136 CNICLDTAKDAVISMCGHL-FCWPCLHQWLETCPNRQTCPVCKAAIDK 182
C ICL+ ++ V CGHL C C + + CP+C+ I+
Sbjct: 5 CVICLERPRNVVFLPCGHLCLCEECAKRLRSK----KKCPICRQPIES 48
Score = 26.6 bits (59), Expect = 2.1
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 37 CNICFDTAKDAVISMCGHL 55
C IC + ++ V CGHL
Sbjct: 5 CVICLERPRNVVFLPCGHL 23
>gnl|CDD|222944 PHA02929, PHA02929, N1R/p28-like protein; Provisional.
Length = 238
Score = 42.1 bits (99), Expect = 9e-05
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 11/51 (21%)
Query: 135 DCNICLDTAKD--------AVISMCGHLFCWPCLHQWLETCPNRQTCPVCK 177
+C IC++ D ++S C H+FC C+ W + + TCPVC+
Sbjct: 176 ECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK---EKNTCPVCR 223
>gnl|CDD|147470 pfam05290, Baculo_IE-1, Baculovirus immediate-early protein (IE-0).
The Autographa californica multinucleocapsid nuclear
polyhedrosis virus (AcMNPV) ie-1 gene product (IE-1) is
thought to play a central role in stimulating early
viral transcription. IE-1 has been demonstrated to
activate several early viral gene promoters and to
negatively regulate the promoters of two other AcMNPV
regulatory genes, ie-0 and ie-2. It is thought that that
IE-1 negatively regulates the expression of certain
genes by binding directly, or as part of a complex, to
promoter regions containing a specific IE-1-binding
motif (5'-ACBYGTAA-3') near their mRNA start sites.
Length = 141
Score = 38.5 bits (90), Expect = 7e-04
Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 4/58 (6%)
Query: 133 IYDCNICLDTAKDAVI----SMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVI 186
+Y CNIC DT+ + CG+ C C + C CPVCK +
Sbjct: 80 LYQCNICQDTSAEEHFLKPNECCGYKICNLCYANLWKFCTVYPVCPVCKTSFKSSSSS 137
>gnl|CDD|227719 COG5432, RAD18, RING-finger-containing E3 ubiquitin ligase [Signal
transduction mechanisms].
Length = 391
Score = 39.7 bits (92), Expect = 9e-04
Identities = 16/43 (37%), Positives = 20/43 (46%), Gaps = 3/43 (6%)
Query: 136 CNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKA 178
C IC + CGH FC C+ + L T P CPVC+
Sbjct: 28 CRICDCRISIPCETTCGHTFCSLCIRRHLGTQPF---CPVCRE 67
>gnl|CDD|227568 COG5243, HRD1, HRD ubiquitin ligase complex, ER membrane component
[Posttranslational modification, protein turnover,
chaperones].
Length = 491
Score = 39.6 bits (92), Expect = 0.001
Identities = 15/38 (39%), Positives = 21/38 (55%), Gaps = 3/38 (7%)
Query: 151 CGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPV 188
CGH+ CL WLE +QTCP+C+ + D+ P
Sbjct: 318 CGHILHLHCLKNWLE---RQQTCPICRRPVIFDQSSPT 352
>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 = 38.8 bits (90), Expect = 0.001
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 3/43 (6%)
Query: 136 CNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKA 178
C+IC D V++ C H FC C+ + L P CP+C+A
Sbjct: 29 CHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPK---CPLCRA 68
>gnl|CDD|227827 COG5540, COG5540, RING-finger-containing ubiquitin ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 374
Score = 36.9 bits (85), Expect = 0.006
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 7/57 (12%)
Query: 127 ENDKGQIYDCNICLD--TAKDAVISM-CGHLFCWPCLHQWLETCPNRQTCPVCKAAI 180
E DKG +C IC+ D + + C H F C+ +WL CPVC+ AI
Sbjct: 319 EADKG--VECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWL--LGYSNKCPVCRTAI 371
>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 = 33.9 bits (78), Expect = 0.008
Identities = 17/44 (38%), Positives = 22/44 (50%), Gaps = 5/44 (11%)
Query: 136 CNICLDTAKDA--VISMCGHLFCWPCLHQWLETCPNRQTCPVCK 177
C C D V CGH F C+ +WL+T R TCP+C+
Sbjct: 33 CPECKSPGDDCPVVWGECGHAFHLHCISRWLKT---RNTCPLCR 73
>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 = 31.7 bits (72), Expect = 0.067
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 147 VISMCGHLFCWPCLHQWLETCPNRQTCPVCK 177
V C H F C+ +WL T ++ CP+C+
Sbjct: 48 VWGKCKHNFHMHCILKWLATETSKGLCPMCR 78
>gnl|CDD|227544 COG5219, COG5219, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 1525
Score = 33.5 bits (76), Expect = 0.11
Identities = 15/58 (25%), Positives = 25/58 (43%), Gaps = 18/58 (31%)
Query: 135 DCNICLDTAKDAVISM------------CGHLFCWPCLHQWLETCPNRQTCPVCKAAI 180
+C IC +V+ M C + F CL++W + R CP+C++ I
Sbjct: 1471 ECAICY-----SVLDMVDRSLPSKRCATCKNKFHTRCLYKWFAS-SARSNCPLCRSEI 1522
>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 = 29.9 bits (68), Expect = 0.17
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 3/56 (5%)
Query: 134 YDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPVY 189
+ C I L+ KD VI G + + +WL + T PV + + +IP
Sbjct: 2 FLCPISLEVMKDPVILPSGQTYERSAIEKWLL---SHGTDPVTGQPLTHEDLIPNL 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 = 28.8 bits (65), Expect = 0.34
Identities = 10/44 (22%), Positives = 17/44 (38%), Gaps = 5/44 (11%)
Query: 136 CNICLDTAKDA----VISMCGHLFCWPCLHQWLETCPNRQTCPV 175
C I + D V+ CGH++ L + + + CP
Sbjct: 13 CPISKEVMTDEENPPVMLPCGHVYSRKALEKLAKNG-GKFKCPY 55
>gnl|CDD|165237 PHA02926, PHA02926, zinc finger-like protein; Provisional.
Length = 242
Score = 31.2 bits (70), Expect = 0.43
Identities = 15/57 (26%), Positives = 25/57 (43%), Gaps = 16/57 (28%)
Query: 135 DCNICLDTAKD---------AVISMCGHLFCWPCLHQWLETCPNRQT-----CPVCK 177
+C IC + ++ C H+FC C++ W T R+T CP+C+
Sbjct: 172 ECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRT--RRETGASDNCPICR 226
>gnl|CDD|227481 COG5152, COG5152, Uncharacterized conserved protein, contains RING
and CCCH-type Zn-fingers [General function prediction
only].
Length = 259
Score = 30.4 bits (68), Expect = 0.66
Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 3/44 (6%)
Query: 136 CNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAA 179
C IC + V++ CGH FC C + + C VC A
Sbjct: 199 CGICKKDYESPVVTECGHSFCSLCAIRKYQKGD---ECGVCGKA 239
>gnl|CDD|227561 COG5236, COG5236, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 493
Score = 29.2 bits (65), Expect = 2.0
Identities = 23/104 (22%), Positives = 38/104 (36%), Gaps = 16/104 (15%)
Query: 74 RDEVPPRPQGQRTERENSSVQSKVSNMATTSSGSKQTPPNRDEGSGDQKKTDGENDKGQI 133
R + P +R+N + K +N++ PN S D + N
Sbjct: 17 RTQGPQNNTKPHNDRKNFRRKQKKNNLSAE--------PNLTTSSADDTDEENMN----- 63
Query: 134 YDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCK 177
C IC + + CGH C C + L ++ CP+C+
Sbjct: 64 --CQICAGSTTYSARYPCGHQICHACAVR-LRALYMQKGCPLCR 104
>gnl|CDD|214763 smart00647, IBR, In Between Ring fingers. the domains occurs
between pairs og RING fingers.
Length = 64
Score = 27.0 bits (60), Expect = 2.2
Identities = 6/13 (46%), Positives = 7/13 (53%)
Query: 151 CGHLFCWPCLHQW 163
CG FC+ C W
Sbjct: 46 CGFSFCFRCKVPW 58
>gnl|CDD|163709 cd08153, srpA_like, Catalase-like heme-binding proteins similar to
the uncharacterized srpA. Catalase is a ubiquitous
enzyme found in both prokaryotes and eukaryotes involved
in the protection of cells from the toxic effects of
peroxides. It catalyses the conversion of hydrogen
peroxide to water and molecular oxygen. Several other
related protein families share the catalase fold and
bind to heme, but do not necessarily have catalase
activity. This family contains uncharacterized proteins
similar to the Synechococcus elongatus PCC 7942
periplasmic protein srpA, of mostly bacterial origin.
The plasmid-encoded srpA is regulated by sulfate, but
does not seem to function in its uptake or metabolism.
Length = 295
Score = 28.7 bits (65), Expect = 2.4
Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 3/42 (7%)
Query: 168 PNRQTCPVCKAAIDKDKVIPVYGR---GGSSKTDPRDKVPPR 206
P+ + +A + +PV GR GG + P D PR
Sbjct: 30 PSGAAASLSRAPLFSGGSVPVTGRFSLGGGNPKAPDDAANPR 71
>gnl|CDD|232843 TIGR00133, gatB, aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase,
B subunit. The heterotrimer GatABC is responsible for
transferring the NH2 group that converts Glu to Gln, or
Asp to Asn after the Glu or Asp has been ligated to the
tRNA for Gln or Asn, respectively. In Lactobacillus,
GatABC is responsible only for tRNA(Gln). In the
Archaea, GatABC is responsible only for tRNA(Asn), while
GatDE is responsible for tRNA(Gln). In lineages that
include Thermus, Chlamydia, or Acidithiobacillus, the
GatABC complex catalyzes both [Protein synthesis, tRNA
aminoacylation].
Length = 478
Score = 28.5 bits (64), Expect = 3.4
Identities = 10/23 (43%), Positives = 12/23 (52%), Gaps = 1/23 (4%)
Query: 154 LFCWPCLHQWLETCPNRQTCPVC 176
LFC C + + PN CPVC
Sbjct: 22 LFC-SCPNSFGSAPPNTNVCPVC 43
>gnl|CDD|173782 cd03362, TOPRIM_TopoIA_TopoIII, TOPRIM_TopoIA_TopoIII: The
topoisomerase-primase (TORPIM) domain found in members
of the type IA family of DNA topoisomerases (Topo IA)
similar to topoisomerase III. Type IA DNA
topoisomerases remove (relax) negative supercoils in
the DNA by: cleaving one strand of the DNA duplex,
covalently linking to the 5' phosphoryl end of the DNA
break and, allowing the other strand of the duplex to
pass through the gap. The TOPRIM domain has two
conserved motifs, one of which centers at a conserved
glutamate and the other one at two conserved aspartates
(DxD). For topoisomerases the conserved glutamate is
believed to act as a general base in strand joining
and, as a general acid in strand cleavage. The DXD
motif may co-ordinate Mg2+, a cofactor required for
full catalytic function.
Length = 151
Score = 27.6 bits (62), Expect = 4.3
Identities = 18/82 (21%), Positives = 21/82 (25%), Gaps = 13/82 (15%)
Query: 19 SGDQKKTDGGNDKSQIYDCNICFDTAKDAVISMCGHLFWLKF--FYWPGRGGSEIDPRDE 76
G KK G + V GHL L F Y P E
Sbjct: 20 GGGSKKKGKGRYYEFYGEGG------GYVVTWASGHLLELDFPEEYDPWDK----VWPLE 69
Query: 77 VPPRPQGQR-TERENSSVQSKV 97
P P + + Q KV
Sbjct: 70 DPLFPAPFKLKVDKGKKKQFKV 91
>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 = 26.2 bits (58), Expect = 4.7
Identities = 24/62 (38%), Positives = 29/62 (46%), Gaps = 16/62 (25%)
Query: 135 DCNIC----LDTAKDAVIS----MCGHLFCWPCLHQWLETCPN-RQ-------TCPVCKA 178
+C IC LD + IS CG F CL++WL T + RQ TCP CKA
Sbjct: 4 ECGICYAYRLDGGEIPDISCDNPKCGLPFHIACLYEWLRTLRDSRQSFNVSFGTCPYCKA 63
Query: 179 AI 180
I
Sbjct: 64 KI 65
>gnl|CDD|238736 cd01459, vWA_copine_like, VWA Copine: Copines are
phospholipid-binding proteins originally identified in
paramecium. They are found in human and orthologues have
been found in C. elegans and Arabidopsis Thaliana. None
have been found in D. Melanogaster or S. Cereviciae.
Phylogenetic distribution suggests that copines have
been lost in some eukaryotes. No functional properties
have been assigned to the VWA domains present in
copines. The members of this subgroup contain a
functional MIDAS motif based on their preferential
binding to magnesium and manganese. However, the MIDAS
motif is not totally conserved, in most cases the MIDAS
consists of the sequence DxTxS instead of the motif
DxSxS that is found in most cases. The C2 domains
present in copines mediate phospholipid binding.
Length = 254
Score = 27.7 bits (62), Expect = 5.3
Identities = 12/35 (34%), Positives = 14/35 (40%), Gaps = 2/35 (5%)
Query: 181 DKDKVIPVYGRGGSSKTDPRDKVPPRPQGQRTEPE 215
D DK+IP +G G D V G PE
Sbjct: 79 DSDKLIPAFGFGAIVTKDQS--VFSFFPGYSESPE 111
>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 = 25.6 bits (56), Expect = 9.2
Identities = 10/32 (31%), Positives = 18/32 (56%), Gaps = 3/32 (9%)
Query: 146 AVISMCGHLFCWPCLHQWLETCPNRQTCPVCK 177
V +C H F C+++WL+T + CP+ +
Sbjct: 49 VVWGVCNHAFHDHCIYRWLDT---KGVCPLDR 77
>gnl|CDD|99858 cd06105, ScCit1-2_like, Saccharomyces cerevisiae (Sc) citrate
synthases Cit1-2_like. Citrate synthases (CS) catalyzes
the condensation of acetyl coenzyme A (AcCoA) with
oxaloacetate (OAA) to form citrate and coenzyme A (CoA),
the first step in the citric acid cycle (TCA or Krebs
cycle). Some CS proteins function as 2-methylcitrate
synthase (2MCS). 2MCS catalyzes the condensation of
propionyl-coenzyme A (PrCoA) and OAA to form
2-methylcitrate and CoA during propionate metabolism.
The overall CS reaction is thought to proceed through
three partial reactions and involves both closed and
open conformational forms of the enzyme: a) the
carbanion or equivalent is generated from AcCoA by base
abstraction of a proton, b) the nucleophilic attack of
this carbanion on OAA to generate citryl-CoA, and c) the
hydrolysis of citryl-CoA to produce citrate and CoA.
There are two types of CSs: type I CS and type II CSs.
Type I CSs are found in eukarya, gram-positive bacteria,
archaea, and in some gram-negative bacteria and are
homodimers with both subunits participating in the
active site. Type II CSs are unique to gram-negative
bacteria and are homohexamers of identical subunits
(approximated as a trimer of dimers). ScCit1 is a
nuclear-encoded mitochondrial CS with highly specificity
for AcCoA. In addition to its CS function, ScCit1 plays
a part in the construction of the TCA cycle metabolon.
Yeast cells deleted for Cit1 are hyper-susceptible to
apoptosis induced by heat and aging stress. ScCit2 is a
peroxisomal CS involved in the glyoxylate cycle; in
addition to having activity with AcCoA, it may have
activity with PrCoA. Chicken and pig heart CS, two
Arabidopsis thaliana (Ath) CSs, CSY4 and -5, and
Aspergillus niger (An) CS also belong to this group. Ath
CSY4 has a mitochondrial targeting sequence; AthCSY5 has
no identifiable targeting sequence. AnCS encoded by the
citA gene has both an N-terminal mitochondrial import
signal and a C-terminal peroxisiomal target sequence; it
is not known if both these signals are functional in
vivo. This group contains proteins which functions
exclusively as either a CS or a 2MCS, as well as those
with relaxed specificity which have dual functions as
both a CS and a 2MCS.
Length = 427
Score = 27.3 bits (61), Expect = 9.3
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 184 KVIPVYGRGGSSKTDPR 200
+V+P YG KTDPR
Sbjct: 307 RVVPGYGHAVLRKTDPR 323
>gnl|CDD|223009 PHA03211, PHA03211, serine/threonine kinase US3; Provisional.
Length = 461
Score = 27.2 bits (60), Expect = 9.4
Identities = 19/70 (27%), Positives = 27/70 (38%), Gaps = 6/70 (8%)
Query: 61 FYWPGRGGSEIDPRDEVPPRPQGQRTEREN-SSVQSKVSNMATTSSGSKQTPPNRDEGSG 119
FY P RG P + PP P G R E +Q ++ M S + P+ +
Sbjct: 38 FYNPPRGVCFPPPPEHDPPSPHGARDEAARLCQIQELLAEMR-----SSEEYPDSGAEAE 92
Query: 120 DQKKTDGEND 129
D D +D
Sbjct: 93 DDDDDDAPDD 102
>gnl|CDD|233345 TIGR01292, TRX_reduct, thioredoxin-disulfide reductase. This model
describes thioredoxin-disulfide reductase, a member of
the pyridine nucleotide-disulphide oxidoreductases
(pfam00070) [Energy metabolism, Electron transport].
Length = 299
Score = 26.8 bits (60), Expect = 9.9
Identities = 8/23 (34%), Positives = 10/23 (43%)
Query: 172 TCPVCKAAIDKDKVIPVYGRGGS 194
C C K+K + V G G S
Sbjct: 129 YCATCDGPFFKNKEVAVVGGGDS 151
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
0.316 0.134 0.435
Gapped
Lambda K H
0.267 0.0723 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,649,200
Number of extensions: 979476
Number of successful extensions: 853
Number of sequences better than 10.0: 1
Number of HSP's gapped: 837
Number of HSP's successfully gapped: 49
Length of query: 248
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 154
Effective length of database: 6,768,326
Effective search space: 1042322204
Effective search space used: 1042322204
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 (21.6 bits)
S2: 58 (26.1 bits)