RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3715
(179 letters)
>gnl|CDD|179085 PRK00668, ndk, mulitfunctional nucleoside diphosphate
kinase/apyrimidinic endonuclease/3'-; Validated.
Length = 134
Score = 88.6 bits (221), Expect = 4e-23
Identities = 26/40 (65%), Positives = 32/40 (80%)
Query: 22 ERTFLMIKPDGVQRGLVGNIIKRFEDKGFKLVAMKFVWVS 61
ERTF +IKPD VQRGL+G II RFE KG K+VA+K + +S
Sbjct: 2 ERTFSIIKPDAVQRGLIGEIISRFEKKGLKIVALKMMQLS 41
Score = 60.9 bits (149), Expect = 2e-12
Identities = 20/39 (51%), Positives = 27/39 (69%)
Query: 140 EMGIPSEELLKQHYSDLATKPFFPGLVKYMSSGPVVPMV 178
+M S EL + HY++ KPFF LV++M+SGPVV MV
Sbjct: 36 KMMQLSRELAEGHYAEHKEKPFFGELVEFMTSGPVVVMV 74
>gnl|CDD|239876 cd04413, NDPk_I, Nucleoside diphosphate kinase Group I
(NDPk_I)-like: NDP kinase domains are present in a
large family of structurally and functionally conserved
proteins from bacteria to humans that generally
catalyze the transfer of gamma-phosphates of a
nucleoside triphosphate (NTP) donor onto a nucleoside
diphosphate (NDP) acceptor through a phosphohistidine
intermediate. The mammalian nm23/NDP kinase gene family
can be divided into two distinct groups. The group I
genes encode proteins that generally have highly
homologous counterparts in other organisms and possess
the classic enzymatic activity of a kinase. This group
includes vertebrate NDP kinases A-D (Nm23- H1 to -H4),
and its counterparts in bacteria, archea and other
eukaryotes. NDP kinases exist in two different
quaternary structures; all known eukaryotic enzymes are
hexamers, while some bacterial enzymes are tetramers,
as in Myxococcus. They possess the NDP kinase active
site motif (NXXH[G/A]SD) and the nine residues that are
most essential for catalysis.
Length = 130
Score = 87.9 bits (219), Expect = 7e-23
Identities = 25/40 (62%), Positives = 33/40 (82%)
Query: 22 ERTFLMIKPDGVQRGLVGNIIKRFEDKGFKLVAMKFVWVS 61
ERT ++IKPDGVQRGL+G II RFE KG K+VA+K + ++
Sbjct: 1 ERTLVIIKPDGVQRGLIGEIISRFERKGLKIVALKMLQLT 40
Score = 71.0 bits (175), Expect = 2e-16
Identities = 21/39 (53%), Positives = 30/39 (76%)
Query: 140 EMGIPSEELLKQHYSDLATKPFFPGLVKYMSSGPVVPMV 178
+M +EEL ++HY++ KPFFP LV++M+SGPVV MV
Sbjct: 35 KMLQLTEELAEEHYAEHKGKPFFPELVEFMTSGPVVAMV 73
>gnl|CDD|201162 pfam00334, NDK, Nucleoside diphosphate kinase.
Length = 135
Score = 84.8 bits (211), Expect = 1e-21
Identities = 25/40 (62%), Positives = 33/40 (82%)
Query: 22 ERTFLMIKPDGVQRGLVGNIIKRFEDKGFKLVAMKFVWVS 61
ERT ++IKPD VQRGL+G II RFE KGFK+VA+K + ++
Sbjct: 1 ERTLVIIKPDAVQRGLIGEIISRFEKKGFKIVALKMLQLT 40
Score = 67.1 bits (165), Expect = 9e-15
Identities = 20/38 (52%), Positives = 28/38 (73%)
Query: 141 MGIPSEELLKQHYSDLATKPFFPGLVKYMSSGPVVPMV 178
M + E ++HY++ KPFFPGLV++M+SGPVV MV
Sbjct: 36 MLQLTREQAEEHYAEHKGKPFFPGLVEFMTSGPVVAMV 73
>gnl|CDD|223183 COG0105, Ndk, Nucleoside diphosphate kinase [Nucleotide transport
and metabolism].
Length = 135
Score = 83.4 bits (207), Expect = 5e-21
Identities = 25/40 (62%), Positives = 31/40 (77%)
Query: 22 ERTFLMIKPDGVQRGLVGNIIKRFEDKGFKLVAMKFVWVS 61
ERT +IKPD V+RGL+G II RFE KG K+VA+K V +S
Sbjct: 3 ERTLSIIKPDAVKRGLIGEIISRFEKKGLKIVALKMVQLS 42
Score = 55.6 bits (135), Expect = 2e-10
Identities = 19/39 (48%), Positives = 27/39 (69%)
Query: 140 EMGIPSEELLKQHYSDLATKPFFPGLVKYMSSGPVVPMV 178
+M S EL + HY++ KPFF LV++++SGPVV MV
Sbjct: 37 KMVQLSRELAENHYAEHKGKPFFGELVEFITSGPVVAMV 75
>gnl|CDD|173387 PTZ00093, PTZ00093, nucleoside diphosphate kinase, cytosolic;
Provisional.
Length = 149
Score = 81.3 bits (201), Expect = 4e-20
Identities = 29/38 (76%), Positives = 33/38 (86%)
Query: 20 PKERTFLMIKPDGVQRGLVGNIIKRFEDKGFKLVAMKF 57
ERTF+M+KPDGVQRGLVG IIKRFE KG+KLVA+K
Sbjct: 1 SSERTFIMVKPDGVQRGLVGEIIKRFEKKGYKLVALKM 38
Score = 67.1 bits (164), Expect = 1e-14
Identities = 23/38 (60%), Positives = 29/38 (76%)
Query: 141 MGIPSEELLKQHYSDLATKPFFPGLVKYMSSGPVVPMV 178
M P+ E+ ++HY + KPFFPGLVKY+SSGPVV MV
Sbjct: 38 MLQPTPEIAEEHYKEHKGKPFFPGLVKYISSGPVVCMV 75
>gnl|CDD|197791 smart00562, NDK, Enzymes that catalyze nonsubstrate specific
conversions of nucleoside diphosphates to nucleoside
triphosphates. These enzymes play important roles in
bacterial growth, signal transduction and
pathogenicity.
Length = 135
Score = 77.2 bits (191), Expect = 1e-18
Identities = 26/40 (65%), Positives = 32/40 (80%)
Query: 22 ERTFLMIKPDGVQRGLVGNIIKRFEDKGFKLVAMKFVWVS 61
ERT +IKPD VQRGL+G II RFE KGFK+VAMK + ++
Sbjct: 1 ERTLAIIKPDAVQRGLIGEIISRFERKGFKIVAMKMLQLT 40
Score = 59.1 bits (144), Expect = 9e-12
Identities = 18/39 (46%), Positives = 27/39 (69%)
Query: 140 EMGIPSEELLKQHYSDLATKPFFPGLVKYMSSGPVVPMV 178
+M +EE ++ Y++ KPFF LV++M+SGPVV MV
Sbjct: 35 KMLQLTEEQAEEFYAEHEGKPFFNDLVEFMTSGPVVAMV 73
>gnl|CDD|178228 PLN02619, PLN02619, nucleoside-diphosphate kinase.
Length = 238
Score = 71.0 bits (174), Expect = 2e-15
Identities = 28/37 (75%), Positives = 31/37 (83%)
Query: 22 ERTFLMIKPDGVQRGLVGNIIKRFEDKGFKLVAMKFV 58
ERTF+ IKPDGVQRGL+ II RFE KGFKLVA+K V
Sbjct: 89 ERTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKVV 125
Score = 54.9 bits (132), Expect = 2e-09
Identities = 20/36 (55%), Positives = 27/36 (75%)
Query: 143 IPSEELLKQHYSDLATKPFFPGLVKYMSSGPVVPMV 178
+PS+E ++HY DL +PFF GL ++SSGPVV MV
Sbjct: 126 VPSKEFAQKHYHDLKERPFFNGLCDFLSSGPVVAMV 161
>gnl|CDD|173010 PRK14544, PRK14544, nucleoside diphosphate kinase; Provisional.
Length = 183
Score = 67.5 bits (165), Expect = 2e-14
Identities = 25/42 (59%), Positives = 31/42 (73%)
Query: 20 PKERTFLMIKPDGVQRGLVGNIIKRFEDKGFKLVAMKFVWVS 61
P ERT +++KPD V+RGLVG II RFE G K+VAMK V +
Sbjct: 2 PIERTLVILKPDAVKRGLVGEIISRFEKAGLKIVAMKMVKAT 43
Score = 31.7 bits (72), Expect = 0.11
Identities = 17/43 (39%), Positives = 20/43 (46%)
Query: 136 KLLTEMGIPSEELLKQHYSDLATKPFFPGLVKYMSSGPVVPMV 178
K E+GI L K LVKYM+SGP+V MV
Sbjct: 67 KAYQELGIDPRARLGTDDPVEVGKKVKESLVKYMTSGPIVAMV 109
>gnl|CDD|238335 cd00595, NDPk, Nucleoside diphosphate kinases (NDP kinases,
NDPks): NDP kinases, responsible for the synthesis of
nucleoside triphosphates (NTPs), are involved in
numerous regulatory processes associated with
proliferation, development, and differentiation. They
are vital for DNA/RNA synthesis, cell division,
macromolecular metabolism and growth. The enzymes
generate NTPs or their deoxy derivatives by terminal
(gamma) phosphotransfer from an NTP such as ATP or GTP
to any nucleoside diphosphate (NDP) or its deoxy
derivative. The sequence of NDPk has been highly
conserved through evolution. There is a single
histidine residue conserved in all known NDK isozymes,
which is involved in the catalytic mechanism. The first
confirmed metastasis suppressor gene was the NDP kinase
protein encoded by the nm23 gene. Unicellular organisms
generally possess only one gene encoding NDP kinase,
while most multicellular organisms possess not only an
ortholog that provides most of the NDP kinase enzymatic
activity but also multiple divergent paralogous genes.
The human genome codes for at least nine NDP kinases
and can be classified into two groups, Groups I and II,
according to their genomic architecture and distinct
enzymatic activity. Group I isoforms (A-D) are
well-conserved, catalytically active, and share 58-88%
identity between each other, while Group II are more
divergent, with only NDPk6 shown to be active. NDP
kinases exist in two different quaternary structures;
all known eukaryotic enzymes are hexamers, while some
bacterial enzymes are tetramers, as in Myxococcus. The
hexamer can be viewed as trimer of dimers, while
tetramers are dimers of dimers, with the dimerization
interface conserved.
Length = 133
Score = 61.6 bits (150), Expect = 1e-12
Identities = 22/37 (59%), Positives = 27/37 (72%)
Query: 22 ERTFLMIKPDGVQRGLVGNIIKRFEDKGFKLVAMKFV 58
ERT +IKPD V GL+G II R ED GF++VAMK +
Sbjct: 1 ERTLALIKPDAVAEGLLGEIIMRIEDAGFEIVAMKEL 37
Score = 52.4 bits (126), Expect = 3e-09
Identities = 17/39 (43%), Positives = 26/39 (66%)
Query: 140 EMGIPSEELLKQHYSDLATKPFFPGLVKYMSSGPVVPMV 178
+ +EE ++ Y + +PFFP LV++MSSGPVV M+
Sbjct: 35 KELHLTEEQAEEFYVEHKGRPFFPDLVQFMSSGPVVAMI 73
>gnl|CDD|184733 PRK14540, PRK14540, nucleoside diphosphate kinase; Provisional.
Length = 134
Score = 60.2 bits (146), Expect = 4e-12
Identities = 23/38 (60%), Positives = 32/38 (84%)
Query: 21 KERTFLMIKPDGVQRGLVGNIIKRFEDKGFKLVAMKFV 58
KERTF+ +KPD V+R L+G II+RFE+KGF++V MK +
Sbjct: 2 KERTFVALKPDAVERKLIGKIIQRFENKGFEIVEMKML 39
Score = 33.6 bits (77), Expect = 0.018
Identities = 11/34 (32%), Positives = 22/34 (64%)
Query: 145 SEELLKQHYSDLATKPFFPGLVKYMSSGPVVPMV 178
+ E+ +++Y + K F+ L+ +M+SG +V MV
Sbjct: 42 TREMAEEYYEEHKGKEFYERLINFMTSGRIVAMV 75
>gnl|CDD|173008 PRK14542, PRK14542, nucleoside diphosphate kinase; Provisional.
Length = 137
Score = 54.7 bits (131), Expect = 5e-10
Identities = 21/41 (51%), Positives = 32/41 (78%)
Query: 22 ERTFLMIKPDGVQRGLVGNIIKRFEDKGFKLVAMKFVWVSF 62
RTF+MIKPDGV+ VGNI++R E +GFK++ +K++ +S
Sbjct: 2 SRTFIMIKPDGVKNKHVGNILQRIEKEGFKILGLKYLKLSL 42
Score = 34.6 bits (79), Expect = 0.007
Identities = 15/31 (48%), Positives = 19/31 (61%)
Query: 145 SEELLKQHYSDLATKPFFPGLVKYMSSGPVV 175
S E KQ Y + +PF+ L YMSSGP+V
Sbjct: 41 SLEDAKQFYKVHSARPFYNDLCNYMSSGPIV 71
>gnl|CDD|184734 PRK14545, PRK14545, nucleoside diphosphate kinase; Provisional.
Length = 139
Score = 54.5 bits (131), Expect = 6e-10
Identities = 18/39 (46%), Positives = 25/39 (64%)
Query: 23 RTFLMIKPDGVQRGLVGNIIKRFEDKGFKLVAMKFVWVS 61
RTF MIKPD V+ G +G I+ GF++VAMK ++
Sbjct: 5 RTFTMIKPDAVENGHIGGILDMITAAGFRIVAMKLTQLT 43
Score = 31.8 bits (72), Expect = 0.079
Identities = 13/41 (31%), Positives = 24/41 (58%), Gaps = 3/41 (7%)
Query: 138 LTEMGIPSEELLKQHYSDLATKPFFPGLVKYMSSGPVVPMV 178
LT++ + + Y+ A +PF+ LV++MS GP+V +
Sbjct: 39 LTQL---TVADAETFYAVHAERPFYGELVEFMSRGPIVAAI 76
>gnl|CDD|237749 PRK14543, PRK14543, nucleoside diphosphate kinase; Provisional.
Length = 169
Score = 54.9 bits (132), Expect = 7e-10
Identities = 21/39 (53%), Positives = 30/39 (76%)
Query: 22 ERTFLMIKPDGVQRGLVGNIIKRFEDKGFKLVAMKFVWV 60
++T +IKPDGV+RGL+GN++ RFE G K+VA K + V
Sbjct: 6 QKTLCIIKPDGVRRGLIGNVVSRFERVGLKIVAAKMLLV 44
>gnl|CDD|173007 PRK14541, PRK14541, nucleoside diphosphate kinase; Provisional.
Length = 140
Score = 44.2 bits (104), Expect = 4e-06
Identities = 17/35 (48%), Positives = 26/35 (74%)
Query: 22 ERTFLMIKPDGVQRGLVGNIIKRFEDKGFKLVAMK 56
ERT ++KPD V++ L+G +I + E GF++VAMK
Sbjct: 2 ERTLTILKPDCVRKQLIGAVIDKIERAGFRVVAMK 36
Score = 35.7 bits (82), Expect = 0.004
Identities = 14/34 (41%), Positives = 23/34 (67%)
Query: 145 SEELLKQHYSDLATKPFFPGLVKYMSSGPVVPMV 178
++E + Y+ +PF+ LV++MSSGP VPM+
Sbjct: 41 TKETAGEFYAVHRERPFYGELVEFMSSGPCVPMI 74
>gnl|CDD|239880 cd04418, NDPk5, Nucleoside diphosphate kinase homolog 5 (NDP kinase
homolog 5, NDPk5, NM23-H5; Inhibitor of p53-induced
apoptosis-beta, IPIA-beta): In human, mRNA for NDPk5 is
almost exclusively found in testis, especially in the
flagella of spermatids and spermatozoa, in association
with axoneme microtubules, and may play a role in
spermatogenesis by increasing the ability of late-stage
spermatids to eliminate reactive oxygen species. It
belongs to the nm23 Group II genes and appears to differ
from the other human NDPks in that it lacks two
important catalytic site residues, and thus does not
appear to possess NDP kinase activity. NDPk5 confers
protection from cell death by Bax and alters the
cellular levels of several antioxidant enzymes,
including glutathione peroxidase 5 (Gpx5).
Length = 132
Score = 40.9 bits (96), Expect = 5e-05
Identities = 18/34 (52%), Positives = 21/34 (61%)
Query: 145 SEELLKQHYSDLATKPFFPGLVKYMSSGPVVPMV 178
S E Y++ K FFP LV YMSSGP+V MV
Sbjct: 38 SPEQCSDFYAEHYGKMFFPHLVAYMSSGPIVAMV 71
>gnl|CDD|215503 PLN02931, PLN02931, nucleoside diphosphate kinase family protein.
Length = 177
Score = 41.3 bits (97), Expect = 6e-05
Identities = 15/26 (57%), Positives = 22/26 (84%)
Query: 153 YSDLATKPFFPGLVKYMSSGPVVPMV 178
Y++ +++ FFP LVKYM+SGPV+ MV
Sbjct: 77 YAEHSSRSFFPSLVKYMTSGPVLVMV 102
Score = 32.5 bits (74), Expect = 0.059
Identities = 17/40 (42%), Positives = 22/40 (55%), Gaps = 8/40 (20%)
Query: 18 AEPKERTFLMIKPDGVQRGLVGNIIKRFE----DKGFKLV 53
A +ERT MIKPD GL GN +R + + GF +V
Sbjct: 26 ASEEERTLAMIKPD----GLSGNYTERIKEVILESGFSIV 61
>gnl|CDD|239875 cd04412, NDPk7B, Nucleoside diphosphate kinase 7 domain B
(NDPk7B): The nm23-H7 class of nucleoside diphosphate
kinase (NDPk7) consists of an N-terminal DM10 domain
and two functional catalytic NDPk modules, NDPk7A and
NDPk7B. The function of the DM10 domain, which also
occurs in multiple copies in other proteins, is
unknown. NDPk7 is predominantly expressed in testes,
although appreciable amount are also found in liver,
heart, brain, ovary, small intestine and spleen. The
nm23-H7 gene is located in or near the hereditary
prostrate cancer susceptibility locus. Nm23-H7 may be
involved in the development of colon and gastric
carcinoma, the latter possibly in a type-specific
manner.
Length = 134
Score = 39.2 bits (92), Expect = 2e-04
Identities = 13/34 (38%), Positives = 23/34 (67%)
Query: 23 RTFLMIKPDGVQRGLVGNIIKRFEDKGFKLVAMK 56
T +IKP V GL+G I+++ D+GF++ A++
Sbjct: 2 CTVCIIKPHAVSHGLLGEILQQILDEGFEITALQ 35
>gnl|CDD|239878 cd04415, NDPk7A, Nucleoside diphosphate kinase 7 domain A (NDPk7A):
The nm23-H7 class of nucleoside diphosphate kinase
(NDPk7) consists of an N-terminal DM10 domain and two
functional catalytic NDPk modules, NDPk7A and NDPk7B.
The function of the DM10 domain, which also occurs in
multiple copies in other proteins, is unknown. NDPk7 is
predominantly expressed in testes, although appreciable
amount are also found in liver, heart, brain, ovary,
small intestine and spleen. The nm23-H7 gene is located
in or near the hereditary prostrate cancer
susceptibility locus. Nm23-H7 may be involved in the
development of colon and gastric carcinoma, the latter
possibly in a type-specific manner.
Length = 131
Score = 37.8 bits (88), Expect = 6e-04
Identities = 12/25 (48%), Positives = 20/25 (80%)
Query: 153 YSDLATKPFFPGLVKYMSSGPVVPM 177
Y++ +KPF+ LV++M+SGP+V M
Sbjct: 46 YAEHQSKPFYNELVQFMTSGPIVAM 70
Score = 34.0 bits (78), Expect = 0.015
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 2/40 (5%)
Query: 22 ERTFLMIKPDGVQRGLVGNIIKRFEDKGFKLVAMKFVWVS 61
E+T +IKPD + +G II+ ED GF + K +S
Sbjct: 1 EKTLALIKPDAYSK--IGKIIQIIEDAGFTITKAKMTKLS 38
>gnl|CDD|239879 cd04416, NDPk_TX, NDP kinase domain of thioredoxin
domain-containing proteins (TXNDC3 and TXNDC6): Txl-2
(TXNDC6) and Sptrx-2 (TXNDC3) are fusion proteins of
Group II N-terminal thioredoxin domains followed by one
or three NDP kinase domains, respectively. Sptrx-2,
which has a tissue specific distribution in human
testis, has been considered as a member of the nm23
family (nm23-H8) and exhibits a high homology with sea
urchin IC1 (intermediate chain-1) protein, a component
of the sperm axonemal outer dynein arm complex. Txl-2 is
mainly represented in close association with
microtubules within tissues with cilia and flagella such
as seminiferous epithelium (spermatids) and lung airway
epithelium, suggesting possible role in control of
microtubule stability and maintenance.
Length = 132
Score = 36.4 bits (85), Expect = 0.002
Identities = 11/34 (32%), Positives = 22/34 (64%)
Query: 145 SEELLKQHYSDLATKPFFPGLVKYMSSGPVVPMV 178
+EE ++ Y + + +F LV++M+SGP + +V
Sbjct: 39 TEEQAREFYKEHEEEDYFEDLVEFMTSGPSLILV 72
Score = 27.2 bits (61), Expect = 3.5
Identities = 12/35 (34%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 22 ERTFLMIKPDGVQRGLVGNIIKRFEDKGFKLVAMK 56
E T +IKPD V I+++ ++ GF+++A K
Sbjct: 1 EYTLALIKPDAVAEK-KDEILEKIKEAGFEILAQK 34
>gnl|CDD|239877 cd04414, NDPk6, Nucleoside diphosphate kinase 6 (NDP kinase 6,
NDPk6, NM23-H6; NME6; Inhibitor of p53-induced
apoptosis-alpha, IPIA-alpha): The nm23-H6 gene encoding
NDPk6 is expressed mainly in mitochondria, but also
found at a lower level in most tissues. NDPk6 has all
nine residues considered crucial for enzyme structure
and activity, and has been found to have NDP kinase
activity. It may play a role in cell growth and cell
cycle progression. The nm23-H6 gene locus has been
implicated in a variety of malignant tumors.
Length = 135
Score = 30.8 bits (70), Expect = 0.16
Identities = 10/32 (31%), Positives = 19/32 (59%)
Query: 147 ELLKQHYSDLATKPFFPGLVKYMSSGPVVPMV 178
E ++ Y++ K F+ LV +M+SGP ++
Sbjct: 43 EDAERFYAEHKGKFFYDRLVSFMTSGPSWALI 74
Score = 25.8 bits (57), Expect = 8.2
Identities = 11/36 (30%), Positives = 17/36 (47%), Gaps = 1/36 (2%)
Query: 22 ERTFLMIKPDGVQRGLVGNIIKRF-EDKGFKLVAMK 56
+ T +IKPD V L +++ GF +V K
Sbjct: 1 QLTLALIKPDAVAHPLALEAVRQLILSNGFTIVRKK 36
>gnl|CDD|185107 PRK15185, PRK15185, transcriptional regulator HilD; Provisional.
Length = 309
Score = 30.0 bits (67), Expect = 0.71
Identities = 18/67 (26%), Positives = 29/67 (43%), Gaps = 16/67 (23%)
Query: 90 LVGITYSTVLGHLNLETSECP--LFHIDYELFPAERQFYCLNNYLTTCKLLTEMGIPSEE 147
+V +T V GH++ + E P Y L P E+Q T+M +P+E+
Sbjct: 84 VVNVTLEEVNGHMDFDILEIPTQRLGALYALIPNEQQ--------------TKMAVPTEK 129
Query: 148 LLKQHYS 154
K Y+
Sbjct: 130 AQKIFYT 136
>gnl|CDD|214497 smart00062, PBPb, Bacterial periplasmic substrate-binding
proteins. bacterial proteins, eukaryotic ones are in
PBPe.
Length = 219
Score = 28.4 bits (64), Expect = 1.9
Identities = 11/38 (28%), Positives = 15/38 (39%), Gaps = 2/38 (5%)
Query: 25 FLMIKPDGVQRGLVGNIIKRFEDKGFKLVAMKFVWVSF 62
F DG G ++ K + V +FV VSF
Sbjct: 13 FSFADEDGELTGFDVDLAKAIAKELGLKV--EFVEVSF 48
>gnl|CDD|238712 cd01424, MGS_CPS_II, Methylglyoxal synthase-like domain from type
II glutamine-dependent carbamoyl phosphate synthetase
(CSP). CSP, a CarA and CarB heterodimer, catalyzes the
production of carbamoyl phosphate which is subsequently
employed in the metabolic pathways responsible for the
synthesis of pyrimidine nucleotides or arginine. The
MGS-like domain is the C-terminal domain of CarB and
appears to play a regulatory role in CPS function by
binding allosteric effector molecules, including UMP
and ornithine.
Length = 110
Score = 27.1 bits (61), Expect = 2.5
Identities = 9/14 (64%), Positives = 10/14 (71%)
Query: 41 IIKRFEDKGFKLVA 54
I KR + GFKLVA
Sbjct: 18 IAKRLAELGFKLVA 31
>gnl|CDD|132883 cd07062, Peptidase_S66_mccF_like, Microcin C7 self-immunity
protein determines resistance to exogenous microcin C7.
Microcin C7 self-immunity protein (mccF): MccF, a
homolog of the LD-carboxypeptidase family, mediates
resistance against exogenously added microcin C7
(MccC7), a ribosomally-encoded peptide antibiotic that
contains a phosphoramidate linkage to adenosine
monophosphate at its C-terminus. The plasmid-encoded
mccF gene is transcribed in the opposite direction to
the other five genes (mccA-E) and is required for the
full expression of immunity but not for production. The
catalytic triad residues (Ser, His, Glu) of
LD-carboxypeptidase are also conserved in MccF,
strongly suggesting that MccF shares the hydrolytic
activity with LD-carboxypeptidases. Substrates of MccF
have not been deduced, but could likely be microcin C7
precursors. The possible role of MccF is to defend
producer cells against exogenous microcin from
re-entering after having been exported. It is
suggested that MccF is involved in microcin degradation
or sequestration in the periplasm.
Length = 308
Score = 27.1 bits (61), Expect = 5.0
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 42 IKRFEDKGFKLVAMKFVW 59
KR E+ GF++V
Sbjct: 24 KKRLENLGFEVVEGPNAL 41
>gnl|CDD|131469 TIGR02416, CO_dehy_Mo_lg, carbon-monoxide dehydrogenase, large
subunit. This model represents the large subunits of
group of carbon-monoxide dehydrogenases that include
molybdenum as part of the enzymatic cofactor. There are
various forms of carbon-monoxide dehydrogenase;
Salicibacter pomeroyi DSS-3, for example, has two forms.
Note that, at least in some species, the active site Cys
is modified with a selenium attached to (rather than
replacing) the sulfur atom. This is termed
selanylcysteine, and created post-translationally, in
contrast to selenocysteine incorporation during
translation as for many other selenoproteins [Energy
metabolism, Other].
Length = 770
Score = 26.8 bits (59), Expect = 6.9
Identities = 16/37 (43%), Positives = 23/37 (62%), Gaps = 4/37 (10%)
Query: 139 TEMGIPSEELLKQHYSDLATKPFFPGLVKYMS-SGPV 174
TE+GIP+E+++ + D T P+ GL Y S S PV
Sbjct: 511 TELGIPAEDIMVEE-GDTDTAPY--GLGTYGSRSTPV 544
>gnl|CDD|217343 pfam03059, NAS, Nicotianamine synthase protein. Nicotianamine
synthase EC:2.5.1.43 catalyzes the trimerisation of
S-adenosylmethionine to yield one molecule of
nicotianamine. Nicotianamine has an important role in
plant iron uptake mechanisms. Plants adopt two
strategies (termed I and II) of iron acquisition.
Strategy I is adopted by all higher plants except
graminaceous plants, which adopt strategy II. In
strategy I plants, the role of nicotianamine is not
fully determined: possible roles include the formation
of more stable complexes with ferrous than with ferric
ion, which might serve as a sensor of the physiological
status of iron within a plant, or which might be
involved in the transport of iron. In strategy II
(graminaceous) plants, nicotianamine is the key
intermediate (and nicotianamine synthase the key enzyme)
in the synthesis of the mugineic family (the only known
family in plants) of phytosiderophores.
Phytosiderophores are iron chelators whose secretion by
the roots is greatly increased in instances of iron
deficiency. The 3D structures of five example NAS from
Methanothermobacter thermautotrophicus reveal the
monomer to consist of a five-helical bundle N-terminal
domain on top of a classic Rossmann fold C-terminal
domain. The N-terminal domain is unique to the NAS
family, whereas the C-terminal domain is homologous to
the class I family of SAM-dependent methyltransferases.
An active site is created at the interface of the two
domains, at the rim of a large cavity that corresponds
to the nucleotide binding site such as is found in other
proteins adopting a Rossmann fold.
Length = 277
Score = 26.6 bits (59), Expect = 7.7
Identities = 23/79 (29%), Positives = 34/79 (43%), Gaps = 26/79 (32%)
Query: 95 YSTVLGHLNLETSECPLFHIDYELFPAERQFYCLNNYLTTCKLLTEMGIPSEELLKQHYS 154
YS +L + PL H+ E+FP +Y NYL KL +LL +H +
Sbjct: 80 YSDILA-----AFDNPLDHL--EIFP----YY--KNYLKLSKL-------EYDLLSRHVT 119
Query: 155 DLATKPFFPGLVKYMSSGP 173
+ ++ F G SGP
Sbjct: 120 GVPSRIAFIG------SGP 132
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
0.327 0.142 0.436
Gapped
Lambda K H
0.267 0.0806 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,027,576
Number of extensions: 810337
Number of successful extensions: 873
Number of sequences better than 10.0: 1
Number of HSP's gapped: 871
Number of HSP's successfully gapped: 49
Length of query: 179
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 88
Effective length of database: 6,901,388
Effective search space: 607322144
Effective search space used: 607322144
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 56 (25.2 bits)