RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7279
(195 letters)
>gnl|CDD|222279 pfam13639, zf-RING_2, Ring finger domain.
Length = 46
Score = 67.8 bits (166), Expect = 7e-16
Identities = 26/43 (60%), Positives = 29/43 (67%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLCR 117
+C ICL F+PGEEV L C H FH ECL+ WLR CPLCR
Sbjct: 2 ECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCR 44
>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 = 53.2 bits (128), Expect = 6e-10
Identities = 20/52 (38%), Positives = 24/52 (46%), Gaps = 10/52 (19%)
Query: 76 CVICLAPF--------QPGEE--VKELLCHHKFHSECLEPWLRERQHCPLCR 117
C IC F PG++ V C H FH C+ WL+ R CPLCR
Sbjct: 22 CAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73
>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 = 52.1 bits (125), Expect = 8e-10
Identities = 19/44 (43%), Positives = 25/44 (56%), Gaps = 3/44 (6%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ-HCPLCR 117
+C ICL F+ E V L C H F C++ WL+ + CPLCR
Sbjct: 1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCR 42
>gnl|CDD|227827 COG5540, COG5540, RING-finger-containing ubiquitin ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 374
Score = 51.9 bits (124), Expect = 4e-08
Identities = 17/47 (36%), Positives = 29/47 (61%), Gaps = 1/47 (2%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQH-CPLCRNAV 120
+C IC++ F + ++ L C H+FH C++ WL + CP+CR A+
Sbjct: 325 ECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI 371
>gnl|CDD|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger).
Length = 45
Score = 45.6 bits (108), Expect = 2e-07
Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLCR 117
C ICL + + V C H F EC+ +L+++ CP+CR
Sbjct: 5 CPICLDLLR--DPVVLTPCGHVFCRECILRYLKKKSKCPICR 44
>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 = 43.7 bits (103), Expect = 9e-07
Identities = 14/42 (33%), Positives = 19/42 (45%), Gaps = 3/42 (7%)
Query: 76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER-QHCPLC 116
C ICL + ++ L C H F C+ WL CP+C
Sbjct: 1 CPICLEEYL--KDPVILPCGHTFCRSCIRKWLESGNNTCPIC 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 = 43.7 bits (103), Expect = 2e-06
Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 76 CVICLAPFQPGEEVKEL--LCHHKFHSECLEPWLRERQHCPLCR 117
C C PG+E + +C+H FH C+ WL + CPL R
Sbjct: 34 CPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDR 77
>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 = 4e-06
Identities = 32/133 (24%), Positives = 48/133 (36%), Gaps = 22/133 (16%)
Query: 76 CVICL-APFQPGEEV---------KELLCHHKFHSECLEPWLRERQHCPLCRNAVSVGSI 125
C IC+ F P E K L C H H CL+ WL +Q CP+CR V +
Sbjct: 290 CTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV-IFDQ 348
Query: 126 SSENGSSWLSDTTGLS----HTDSYFFLTAEEFSDAEAFAEALVEAFPQVFPEDPIDWNA 181
SS +S T ++ + D+ T + + PQ + +
Sbjct: 349 SSPTPASPNVRNTQIATQVPNPDNTPTTT-----AVPGITNSSNQGDPQASTFNGVP--N 401
Query: 182 ENGDTVSMHSQHT 194
N + H+Q
Sbjct: 402 ANSSGFAAHTQDL 414
>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 = 41.3 bits (97), Expect = 2e-05
Identities = 17/55 (30%), Positives = 23/55 (41%), Gaps = 13/55 (23%)
Query: 76 CVICLAPFQ--------PGEEVKELL--CHHKFHSECLEPWLRE---RQHCPLCR 117
C IC F PG++ + C H FH C+ WL + CP+CR
Sbjct: 24 CGICRVSFDGTCPQCKFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCR 78
>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 = 40.1 bits (94), Expect = 2e-05
Identities = 17/42 (40%), Positives = 21/42 (50%), Gaps = 3/42 (7%)
Query: 76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLR-ERQHCPLC 116
C ICL + + V L C H F S+C+ WL CPLC
Sbjct: 1 CPICLEEPK--DPVTILPCGHLFCSKCILSWLESGNVTCPLC 40
>gnl|CDD|222944 PHA02929, PHA02929, N1R/p28-like protein; Provisional.
Length = 238
Score = 40.5 bits (95), Expect = 2e-04
Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 7/50 (14%)
Query: 75 QCVICLAPFQPGEEVKELL------CHHKFHSECLEPWLRERQHCPLCRN 118
+C IC+ +E+K + C+H F EC++ W +E+ CP+CR
Sbjct: 176 ECAICMEKVY-DKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRT 224
>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 = 36.2 bits (84), Expect = 9e-04
Identities = 21/64 (32%), Positives = 28/64 (43%), Gaps = 16/64 (25%)
Query: 75 QCVICLAPFQPGEEVKELLCHH-----KFHSECLEPWLRE----RQ-------HCPLCRN 118
+C IC A G E+ ++ C + FH CL WLR RQ CP C+
Sbjct: 4 ECGICYAYRLDGGEIPDISCDNPKCGLPFHIACLYEWLRTLRDSRQSFNVSFGTCPYCKA 63
Query: 119 AVSV 122
+SV
Sbjct: 64 KISV 67
>gnl|CDD|227544 COG5219, COG5219, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 1525
Score = 38.9 bits (90), Expect = 0.001
Identities = 13/30 (43%), Positives = 19/30 (63%), Gaps = 2/30 (6%)
Query: 94 CHHKFHSECLEPWLRE--RQHCPLCRNAVS 121
C +KFH+ CL W R +CPLCR+ ++
Sbjct: 1494 CKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523
>gnl|CDD|128983 smart00744, RINGv, The RING-variant domain is a C4HC3 zinc-finger
like motif found in a number of cellular and viral
proteins. Some of these proteins have been shown both
in vivo and in vitro to have ubiquitin E3 ligase
activity. The RING-variant domain is reminiscent of both
the RING and the PHD domains and may represent an
evolutionary intermediate. To describe this domain the
term PHD/LAP domain has been used in the past. Extended
description: The RING-variant (RINGv) domain contains a
C4HC3 zinc-finger-like motif similar to the PHD domain,
while some of the spacing between the Cys/His residues
follow a pattern somewhat closer to that found in the
RING domain. The RINGv domain, similar to the RING, PHD
and LIM domains, is thought to bind two zinc ions
co-ordinated by the highly conserved Cys and His
residues. RING variant domain: C-x (2) -C-x(10-45)-C-x
(1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a
PHD: C-x(1-2) -C-x
(7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C
Classical RING domain: C-x (2) -C-x
(9-39)-C-x(1-3)-H-x(2-3)-C-x(2)-C-x(4-48) -C-x(2)-C.
Length = 49
Score = 34.2 bits (79), Expect = 0.003
Identities = 14/50 (28%), Positives = 19/50 (38%), Gaps = 8/50 (16%)
Query: 75 QCVICLAPFQPGEEVKELLCH-----HKFHSECLEPWLRERQ--HCPLCR 117
C IC G+ + C H ECLE W+ E C +C+
Sbjct: 1 ICRICHDEGDEGDPLV-SPCRCKGSLKYVHQECLERWINESGNKTCEICK 49
>gnl|CDD|221845 pfam12906, RINGv, RING-variant domain.
Length = 47
Score = 33.1 bits (76), Expect = 0.006
Identities = 15/50 (30%), Positives = 20/50 (40%), Gaps = 12/50 (24%)
Query: 76 CVICLAPFQPGEEVKELL--CH-----HKFHSECLEPWLRER--QHCPLC 116
C IC + EE + L+ C H CLE WL+ C +C
Sbjct: 1 CRIC---LEGEEEDEPLIRPCRCRGSLKYVHQSCLERWLKTSGNTTCEIC 47
>gnl|CDD|227719 COG5432, RAD18, RING-finger-containing E3 ubiquitin ligase [Signal
transduction mechanisms].
Length = 391
Score = 33.1 bits (75), Expect = 0.080
Identities = 12/40 (30%), Positives = 17/40 (42%)
Query: 94 CHHKFHSECLEPWLRERQHCPLCRNAVSVGSISSENGSSW 133
C H F S C+ L + CP+CR + +GS
Sbjct: 43 CGHTFCSLCIRRHLGTQPFCPVCREDPCESRLRGSSGSRE 82
>gnl|CDD|218794 pfam05883, Baculo_RING, Baculovirus U-box/Ring-like domain. This
family consists of several Baculovirus proteins of
around 130 residues in length. The function of this
family is unknown, but it appears to be related to the
U-box and ring finger domain by profile-profile
comparison.
Length = 135
Score = 31.8 bits (73), Expect = 0.086
Identities = 16/49 (32%), Positives = 21/49 (42%), Gaps = 6/49 (12%)
Query: 76 CVICLAPFQPGEEVKELLCH------HKFHSECLEPWLRERQHCPLCRN 118
C ICL + V + FH+EC + W RER+ P RN
Sbjct: 29 CAICLDRINDNDGVVAVTDGGTLNLEKMFHAECDKRWKRERKRDPFNRN 77
>gnl|CDD|222454 pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RING finger).
Length = 49
Score = 29.7 bits (67), Expect = 0.13
Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 11/51 (21%)
Query: 75 QCVICLAPFQPGEEVKELLC----HHKFHSECLEPWLRERQHCPLCRNAVS 121
CVICL E + ++ H EC + LR ++ CP+CR +
Sbjct: 4 LCVICL------ERPRNVVFLPCGHLCLCEECAK-RLRSKKKCPICRQPIE 47
>gnl|CDD|225586 COG3044, COG3044, Predicted ATPase of the ABC class [General
function prediction only].
Length = 554
Score = 31.4 bits (71), Expect = 0.31
Identities = 5/32 (15%), Positives = 10/32 (31%)
Query: 5 WFYSNKTSKVGQEHSELRPPRAPFSIRRFGRI 36
+ H +L PR ++ R+
Sbjct: 516 KMLEGDWYQAMPNHGDLAKPRILDAMAALNRM 547
>gnl|CDD|222522 pfam14067, LssY_C, LssY C-terminus. This domain is found at the
C-terminus of Legionella LssY proteins, which may be a
part of the type I secretion system. This domain is
functionally uncharacterized. This domain is found in
bacteria, and is typically between 182 and 195 amino
acids in length. It is often found in association with
pfam09335 and PF01569. There are two completely
conserved residues (P and W) that may be functionally
important.
Length = 193
Score = 30.4 bits (69), Expect = 0.43
Identities = 18/68 (26%), Positives = 28/68 (41%), Gaps = 7/68 (10%)
Query: 26 APFSIRRFGRIPSIASTDSELSPPRAPFSTR-RFGQIPSIAF--PADEAPAAQCVICL-- 80
F++R + + S + P AP S FG+ +AF P +PA + + L
Sbjct: 50 DTFTLRSSWKA--LGSLLLKRPYPEAPVSPLFLFGRPQDLAFQKPVGGSPAKRHHVRLWK 107
Query: 81 APFQPGEE 88
P PG
Sbjct: 108 TPEDPGGG 115
>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 = 30.7 bits (69), Expect = 0.47
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 94 CHHKFHSECLEPWLRERQHCPLCR 117
C H F S C+ L + CPLCR
Sbjct: 44 CSHTFCSLCIRRCLSNQPKCPLCR 67
>gnl|CDD|240008 cd04637, CBS_pair_24, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa
(IMP dehydrogenase-1), and homocystinuria
(cystathionine beta-synthase).
Length = 122
Score = 29.2 bits (66), Expect = 0.68
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 77 VICLAPFQPGEEVKELLCHHKFH 99
V+ + EEV+E+ HKFH
Sbjct: 3 VVTVEMDDRLEEVREIFEKHKFH 25
>gnl|CDD|235106 PRK03158, PRK03158, histidinol-phosphate aminotransferase;
Provisional.
Length = 359
Score = 29.9 bits (68), Expect = 0.78
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 39 IASTD--SELSPPRAPFSTRRFGQIPSIAFPADEAPAAQCV 77
IAS + +L+ R PF+T R Q +IA D+A +CV
Sbjct: 235 IASEELIEKLNIARPPFNTTRIAQYAAIAALEDQAFLKECV 275
>gnl|CDD|165237 PHA02926, PHA02926, zinc finger-like protein; Provisional.
Length = 242
Score = 29.3 bits (65), Expect = 1.1
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 6/30 (20%)
Query: 94 CHHKFHSECLEPWLRERQ------HCPLCR 117
C+H F C+ W R R+ +CP+CR
Sbjct: 197 CNHIFCITCINIWHRTRRETGASDNCPICR 226
>gnl|CDD|222444 pfam13901, DUF4206, Domain of unknown function (DUF4206). This is
a family of cysteine-rich proteins. Many members also
carry a pleckstrin-homology domain, pfam00169.
Length = 202
Score = 28.8 bits (65), Expect = 1.3
Identities = 14/46 (30%), Positives = 16/46 (34%), Gaps = 10/46 (21%)
Query: 76 CVIC-----LAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCPLC 116
C C + PFQ + C FH EC E CP C
Sbjct: 155 CEFCDNDEVIFPFQTDTTSRCEGCGAVFHKECY-----ESSPCPKC 195
>gnl|CDD|227861 COG5574, PEX10, RING-finger-containing E3 ubiquitin ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 271
Score = 28.7 bits (64), Expect = 2.1
Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 5/49 (10%)
Query: 75 QCVICLAPFQPGEEVKELLCHHKFHSECL-EPWLRER-QHCPLCRNAVS 121
+C +C + E C H F CL W +++ + CPLCR V
Sbjct: 217 KCFLC---LEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVY 262
>gnl|CDD|201356 pfam00628, PHD, PHD-finger. PHD folds into an interleaved type of
Zn-finger chelating 2 Zn ions in a similar manner to
that of the RING and FYVE domains. Several PHD fingers
have been identified as binding modules of methylated
histone H3.
Length = 51
Score = 26.3 bits (58), Expect = 2.1
Identities = 14/50 (28%), Positives = 18/50 (36%), Gaps = 6/50 (12%)
Query: 76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQH------CPLCRNA 119
C +C GE + C FH CL P L + CP C+
Sbjct: 2 CAVCGKVDDDGELLLCDGCDRWFHLACLGPPLEPEEIPEGEWYCPECKPK 51
>gnl|CDD|214584 smart00249, PHD, PHD zinc finger. The plant homeodomain (PHD)
finger is a C4HC3 zinc-finger-like motif found in
nuclear proteins thought to be involved in epigenetics
and chromatin-mediated transcriptional regulation. The
PHD finger binds two zinc ions using the so-called
'cross-brace' motif and is thus structurally related to
the RING finger and the FYVE finger. It is not yet known
if PHD fingers have a common molecular function. Several
reports suggest that it can function as a
protein-protein interacton domain and it was recently
demonstrated that the PHD finger of p300 can cooperate
with the adjacent BROMO domain in nucleosome binding in
vitro. Other reports suggesting that the PHD finger is a
ubiquitin ligase have been refuted as these domains were
RING fingers misidentified as PHD fingers.
Length = 47
Score = 26.0 bits (57), Expect = 2.4
Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 5/46 (10%)
Query: 76 CVICLAPFQPGEEVKELLCHHKFHSECLEP-----WLRERQHCPLC 116
C +C P GE ++ C +H CL P + +CP C
Sbjct: 2 CSVCGKPDDGGELLQCDGCDRWYHQTCLGPPLLEEEPDGKWYCPKC 47
>gnl|CDD|233362 TIGR01340, aconitase_mito, aconitate hydratase, mitochondrial.
This model represents mitochondrial forms of the TCA
cycle enzyme aconitate hydratase, also known as
aconitase and citrate hydro-lyase [Energy metabolism,
TCA cycle].
Length = 745
Score = 28.3 bits (63), Expect = 3.0
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 9/60 (15%)
Query: 80 LAPFQP--GEEVKELLCHHKFHSECLE-------PWLRERQHCPLCRNAVSVGSISSENG 130
L PF+P G+++ L K +C PWL+ + H N +G++++E G
Sbjct: 536 LEPFEPWNGKDLSGLRVLIKVTGKCTTDHISAAGPWLKYKGHLDNISNNTLIGAVNAETG 595
>gnl|CDD|223291 COG0213, DeoA, Thymidine phosphorylase [Nucleotide transport and
metabolism].
Length = 435
Score = 28.0 bits (63), Expect = 3.2
Identities = 12/49 (24%), Positives = 18/49 (36%), Gaps = 11/49 (22%)
Query: 148 FLTAEEFSD-----AEAFAEALVEAFPQVFPEDPIDWNAENGDTVSMHS 191
FL A F A A+V++ + +D + G V HS
Sbjct: 42 FLMAIFFRGMTMDEIAALTMAMVDS------GEVLDLSDIPGPVVDKHS 84
>gnl|CDD|236572 PRK09566, nirA, ferredoxin-nitrite reductase; Reviewed.
Length = 513
Score = 28.0 bits (63), Expect = 3.3
Identities = 24/103 (23%), Positives = 35/103 (33%), Gaps = 35/103 (33%)
Query: 103 LEPWLRERQHCPLCRNAVSVGSISSENGSS---------WLSDTTGLSHTDSYFFLTAEE 153
L W++ + LCR ++ + +NG WL D G+
Sbjct: 236 LNAWVKPDEVVRLCR---AILEVYRDNGLRANRQKGRLMWLIDEWGI------------- 279
Query: 154 FSDAEAFAEALVEAFPQVF----PEDPIDWNAENGDTVSMHSQ 192
E F A+ F P D IDW E D + +H Q
Sbjct: 280 ----EKFRAAVEAQFGPPLLTAAPGDEIDW--EKRDHIGVHPQ 316
>gnl|CDD|234617 PRK00077, eno, enolase; Provisional.
Length = 425
Score = 27.7 bits (63), Expect = 3.6
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 6/34 (17%)
Query: 149 LTAEEFSDAEAFAEALVEAFPQVFPEDPI---DW 179
LT+EE D + LV+ +P V ED + DW
Sbjct: 261 LTSEEMID---YLAELVDKYPIVSIEDGLDENDW 291
>gnl|CDD|222679 pfam14322, SusD-like_3, Starch-binding associating with outer
membrane. SusD is a secreted starch-binding protein
with an N-terminal lipid tail that allows it to
associate with the outer membrane.
Length = 190
Score = 27.3 bits (61), Expect = 4.4
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 33 FGRIPSIASTDSELSPPRA 51
FG +P +T+ E + PRA
Sbjct: 125 FGGVPYTTATEPEQNLPRA 143
>gnl|CDD|219212 pfam06877, DUF1260, Protein of unknown function (DUF1260). This
family consists of several hypothetical bacterial
proteins of around 120 residues in length. The function
of this family is unknown.
Length = 103
Score = 26.4 bits (59), Expect = 4.6
Identities = 5/20 (25%), Positives = 7/20 (35%)
Query: 147 FFLTAEEFSDAEAFAEALVE 166
E+ D E AE +
Sbjct: 27 HHFYFEDEDDLEKAAEEAFK 46
>gnl|CDD|238810 cd01578, AcnA_Mitochon_Swivel, Mitochondrial aconitase A swivel
domain. Aconitase (also known as aconitate hydratase and
citrate hydro-lyase) catalyzes the reversible
isomerization of citrate and isocitrate as part of the
TCA cycle. This is the aconitase swivel domain, which
undergoes swivelling conformational change in the enzyme
mechanism. In eukaryotes two isozymes of aconitase are
known to exist: one found in the mitochondrial matrix
and the other found in the cytoplasm. This is the
mitochondrial form. The mitochondrial product is coded
by a nuclear gene. Most members of this subfamily are
mitochondrial but there are some bacterial members.
Length = 149
Score = 27.0 bits (60), Expect = 4.8
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 105 PWLRERQHCPLCRNAVSVGSISSENG 130
PWL+ R H N + +G+I++ENG
Sbjct: 16 PWLKYRGHLDNISNNLLIGAINAENG 41
>gnl|CDD|217612 pfam03553, Na_H_antiporter, Na+/H+ antiporter family. This family
includes integral membrane proteins, some of which are
NA+/H+ antiporters.
Length = 302
Score = 27.3 bits (61), Expect = 5.8
Identities = 13/46 (28%), Positives = 17/46 (36%), Gaps = 9/46 (19%)
Query: 131 SSWLSDTTGLS----HTDSYFFLTAEEFSDAEAFAEALVEAFPQVF 172
SS LSDTTGL+ TD + + F + F
Sbjct: 8 SSPLSDTTGLAAGFQKTDIF-----DHIKAHGMFVTTIPANILAAF 48
>gnl|CDD|239429 cd03313, enolase, Enolase: Enolases are homodimeric enzymes that
catalyse the reversible dehydration of
2-phospho-D-glycerate to phosphoenolpyruvate as part of
the glycolytic and gluconeogenesis pathways. The
reaction is facilitated by the presence of metal ions.
Length = 408
Score = 27.1 bits (61), Expect = 6.0
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 12/49 (24%)
Query: 148 FLTAEEFSDAEAFAEALVEAFPQVFPEDPI---DW------NAENGDTV 187
LT+EE D + + LV+ +P V EDP DW A+ GD +
Sbjct: 260 KLTSEELID---YYKELVKKYPIVSIEDPFDEDDWEGWAKLTAKLGDKI 305
>gnl|CDD|177904 PLN02263, PLN02263, serine decarboxylase.
Length = 470
Score = 27.1 bits (60), Expect = 8.1
Identities = 8/43 (18%), Positives = 15/43 (34%)
Query: 62 PSIAFPADEAPAAQCVICLAPFQPGEEVKELLCHHKFHSECLE 104
P + A V +A + +E++ H+ CL
Sbjct: 15 PDLLVSDPLPVATYNVAVVAEYGDLGGEREIVLGRNVHTTCLA 57
>gnl|CDD|217619 pfam03571, Peptidase_M49, Peptidase family M49.
Length = 550
Score = 26.8 bits (60), Expect = 8.1
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 6/32 (18%)
Query: 1 MGLFWFYSNKTSKVGQEHSELRPPRAPFSIRR 32
+ L FY+ +T K GQ H +A F I +
Sbjct: 402 LAL-EFYNPETKKWGQAHM-----QARFVILK 427
>gnl|CDD|233589 TIGR01828, pyru_phos_dikin, pyruvate, phosphate dikinase. This
model represents pyruvate,phosphate dikinase, also
called pyruvate,orthophosphate dikinase. It is similar
in sequence to other PEP-utilizing enzymes [Energy
metabolism, Other].
Length = 856
Score = 26.9 bits (60), Expect = 8.3
Identities = 10/29 (34%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 149 LTAEEFSD-AEAFAEALVEAFPQVFPEDP 176
LTA++ + E + EA + FP+DP
Sbjct: 170 LTADDLKELIEKYKAIYREATGKPFPQDP 198
>gnl|CDD|213788 TIGR03263, guanyl_kin, guanylate kinase. Members of this family
are the enzyme guanylate kinase, also called GMP kinase.
This enzyme transfers a phosphate from ATP to GMP,
yielding ADP and GDP [Purines, pyrimidines, nucleosides,
and nucleotides, Nucleotide and nucleoside
interconversions].
Length = 179
Score = 26.3 bits (59), Expect = 8.4
Identities = 9/20 (45%), Positives = 11/20 (55%), Gaps = 3/20 (15%)
Query: 146 YFFLTAEEFS---DAEAFAE 162
YFF++ EEF A F E
Sbjct: 48 YFFVSKEEFEEMIKAGEFLE 67
>gnl|CDD|236342 PRK08862, PRK08862, short chain dehydrogenase; Provisional.
Length = 227
Score = 26.6 bits (59), Expect = 8.6
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 26 APFSIRRFGRIPSIASTDSELS 47
PF+IR G +PSI S + EL
Sbjct: 173 TPFNIRVGGVVPSIFSANGELD 194
>gnl|CDD|190895 pfam04175, DUF406, Protein of unknown function (DUF406). Members
of this family appear to be found only in gamma
proteobacteria. The function of this protein family is
undetermined. Solution of the structures of the two
members of this family investigated bear some
resemblance to that of the single domain enzyme
pterin-4a-carbinolamine dehydratase, PDC. Although the
residues of PCDs involved in binding of metabolite are
not conserved in the two structures under study, they do
correspond to a surface-region structurally aligned with
residues that are highly conserved, eg Glu 89,
suggesting that this region is also involved in binding
of a ligand, thereby possibly constituting a catalytic
site of a yet uncharacterized enzyme specific for gamma
proteobacteria.
Length = 93
Score = 25.3 bits (56), Expect = 9.6
Identities = 15/62 (24%), Positives = 19/62 (30%), Gaps = 12/62 (19%)
Query: 113 CPLCRNAVSVGSISSENGSSWLSDTTGLSHTDSYFFLTAEEFSDAEAFAEALVEAFPQVF 172
C C V +GSI DT + ++AEA L E V
Sbjct: 7 CEACGCFVDIGSIIDN------GDTV-AE-----VSFVGDSEAEAEAELAKLTEKAKAVE 54
Query: 173 PE 174
E
Sbjct: 55 SE 56
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
0.319 0.133 0.421
Gapped
Lambda K H
0.267 0.0738 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,971,178
Number of extensions: 892603
Number of successful extensions: 1151
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1145
Number of HSP's successfully gapped: 57
Length of query: 195
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 103
Effective length of database: 6,857,034
Effective search space: 706274502
Effective search space used: 706274502
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: 56 (25.3 bits)