RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 026953
(230 letters)
>gnl|CDD|178228 PLN02619, PLN02619, nucleoside-diphosphate kinase.
Length = 238
Score = 290 bits (743), Expect = e-100
Identities = 135/163 (82%), Positives = 147/163 (90%), Gaps = 3/163 (1%)
Query: 1 MSSQIVRSASRAATARSLLSASKNSRFYSEGRAVSAAAAVTFSGKLPYLVSSFGRA-GSS 59
MSSQI RSASRAA RSLLS++KN+ F SEGRAV+AAAAV+ GK P L S+FGRA GSS
Sbjct: 1 MSSQICRSASRAA--RSLLSSAKNASFLSEGRAVAAAAAVSAGGKPPLLASAFGRATGSS 58
Query: 60 TASRSWLSGAIAIPAAAYTLQEQEVHAAEMERTFIAIKPDGVQRGLISEIISRFERKGFK 119
TAS W+SGA+A+PAA Y LQEQE HAAEMERTFIAIKPDGVQRGLISEIISRFERKGFK
Sbjct: 59 TASAQWISGALALPAAVYMLQEQEAHAAEMERTFIAIKPDGVQRGLISEIISRFERKGFK 118
Query: 120 LVAIKIVVPSKEFAQKHYHDLKERPFFNGLCEFLSSGPVIAMV 162
LVAIK+VVPSKEFAQKHYHDLKERPFFNGLC+FLSSGPV+AMV
Sbjct: 119 LVAIKVVVPSKEFAQKHYHDLKERPFFNGLCDFLSSGPVVAMV 161
>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 = 144 bits (366), Expect = 2e-44
Identities = 46/73 (63%), Positives = 60/73 (82%)
Query: 90 ERTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKIVVPSKEFAQKHYHDLKERPFFNGL 149
ERT + IKPDGVQRGLI EIISRFERKG K+VA+K++ ++E A++HY + K +PFF L
Sbjct: 1 ERTLVIIKPDGVQRGLIGEIISRFERKGLKIVALKMLQLTEELAEEHYAEHKGKPFFPEL 60
Query: 150 CEFLSSGPVIAMV 162
EF++SGPV+AMV
Sbjct: 61 VEFMTSGPVVAMV 73
>gnl|CDD|201162 pfam00334, NDK, Nucleoside diphosphate kinase.
Length = 135
Score = 140 bits (356), Expect = 9e-43
Identities = 46/73 (63%), Positives = 61/73 (83%)
Query: 90 ERTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKIVVPSKEFAQKHYHDLKERPFFNGL 149
ERT + IKPD VQRGLI EIISRFE+KGFK+VA+K++ ++E A++HY + K +PFF GL
Sbjct: 1 ERTLVIIKPDAVQRGLIGEIISRFEKKGFKIVALKMLQLTREQAEEHYAEHKGKPFFPGL 60
Query: 150 CEFLSSGPVIAMV 162
EF++SGPV+AMV
Sbjct: 61 VEFMTSGPVVAMV 73
>gnl|CDD|179085 PRK00668, ndk, mulitfunctional nucleoside diphosphate
kinase/apyrimidinic endonuclease/3'-; Validated.
Length = 134
Score = 138 bits (351), Expect = 6e-42
Identities = 47/74 (63%), Positives = 59/74 (79%)
Query: 89 MERTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKIVVPSKEFAQKHYHDLKERPFFNG 148
MERTF IKPD VQRGLI EIISRFE+KG K+VA+K++ S+E A+ HY + KE+PFF
Sbjct: 1 MERTFSIIKPDAVQRGLIGEIISRFEKKGLKIVALKMMQLSRELAEGHYAEHKEKPFFGE 60
Query: 149 LCEFLSSGPVIAMV 162
L EF++SGPV+ MV
Sbjct: 61 LVEFMTSGPVVVMV 74
>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 = 134 bits (340), Expect = 2e-40
Identities = 45/73 (61%), Positives = 59/73 (80%)
Query: 90 ERTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKIVVPSKEFAQKHYHDLKERPFFNGL 149
ERT IKPD VQRGLI EIISRFERKGFK+VA+K++ ++E A++ Y + + +PFFN L
Sbjct: 1 ERTLAIIKPDAVQRGLIGEIISRFERKGFKIVAMKMLQLTEEQAEEFYAEHEGKPFFNDL 60
Query: 150 CEFLSSGPVIAMV 162
EF++SGPV+AMV
Sbjct: 61 VEFMTSGPVVAMV 73
>gnl|CDD|173387 PTZ00093, PTZ00093, nucleoside diphosphate kinase, cytosolic;
Provisional.
Length = 149
Score = 134 bits (339), Expect = 5e-40
Identities = 45/74 (60%), Positives = 61/74 (82%)
Query: 89 MERTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKIVVPSKEFAQKHYHDLKERPFFNG 148
ERTFI +KPDGVQRGL+ EII RFE+KG+KLVA+K++ P+ E A++HY + K +PFF G
Sbjct: 2 SERTFIMVKPDGVQRGLVGEIIKRFEKKGYKLVALKMLQPTPEIAEEHYKEHKGKPFFPG 61
Query: 149 LCEFLSSGPVIAMV 162
L +++SSGPV+ MV
Sbjct: 62 LVKYISSGPVVCMV 75
>gnl|CDD|223183 COG0105, Ndk, Nucleoside diphosphate kinase [Nucleotide transport
and metabolism].
Length = 135
Score = 129 bits (327), Expect = 2e-38
Identities = 46/75 (61%), Positives = 58/75 (77%)
Query: 88 EMERTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKIVVPSKEFAQKHYHDLKERPFFN 147
MERT IKPD V+RGLI EIISRFE+KG K+VA+K+V S+E A+ HY + K +PFF
Sbjct: 1 AMERTLSIIKPDAVKRGLIGEIISRFEKKGLKIVALKMVQLSRELAENHYAEHKGKPFFG 60
Query: 148 GLCEFLSSGPVIAMV 162
L EF++SGPV+AMV
Sbjct: 61 ELVEFITSGPVVAMV 75
>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 = 104 bits (261), Expect = 1e-28
Identities = 37/73 (50%), Positives = 51/73 (69%)
Query: 90 ERTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKIVVPSKEFAQKHYHDLKERPFFNGL 149
ERT IKPD V GL+ EII R E GF++VA+K + ++E A++ Y + K RPFF L
Sbjct: 1 ERTLALIKPDAVAEGLLGEIIMRIEDAGFEIVAMKELHLTEEQAEEFYVEHKGRPFFPDL 60
Query: 150 CEFLSSGPVIAMV 162
+F+SSGPV+AM+
Sbjct: 61 VQFMSSGPVVAMI 73
>gnl|CDD|184733 PRK14540, PRK14540, nucleoside diphosphate kinase; Provisional.
Length = 134
Score = 94.5 bits (235), Expect = 8e-25
Identities = 35/75 (46%), Positives = 56/75 (74%)
Query: 88 EMERTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKIVVPSKEFAQKHYHDLKERPFFN 147
E ERTF+A+KPD V+R LI +II RFE KGF++V +K++ ++E A+++Y + K + F+
Sbjct: 1 EKERTFVALKPDAVERKLIGKIIQRFENKGFEIVEMKMLKLTREMAEEYYEEHKGKEFYE 60
Query: 148 GLCEFLSSGPVIAMV 162
L F++SG ++AMV
Sbjct: 61 RLINFMTSGRIVAMV 75
>gnl|CDD|173008 PRK14542, PRK14542, nucleoside diphosphate kinase; Provisional.
Length = 137
Score = 75.5 bits (185), Expect = 2e-17
Identities = 33/72 (45%), Positives = 49/72 (68%)
Query: 89 MERTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKIVVPSKEFAQKHYHDLKERPFFNG 148
M RTFI IKPDGV+ + I+ R E++GFK++ +K + S E A++ Y RPF+N
Sbjct: 1 MSRTFIMIKPDGVKNKHVGNILQRIEKEGFKILGLKYLKLSLEDAKQFYKVHSARPFYND 60
Query: 149 LCEFLSSGPVIA 160
LC ++SSGP++A
Sbjct: 61 LCNYMSSGPIVA 72
>gnl|CDD|173007 PRK14541, PRK14541, nucleoside diphosphate kinase; Provisional.
Length = 140
Score = 75.4 bits (185), Expect = 2e-17
Identities = 34/74 (45%), Positives = 49/74 (66%)
Query: 89 MERTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKIVVPSKEFAQKHYHDLKERPFFNG 148
MERT +KPD V++ LI +I + ER GF++VA+K +KE A + Y +ERPF+
Sbjct: 1 MERTLTILKPDCVRKQLIGAVIDKIERAGFRVVAMKKTRLTKETAGEFYAVHRERPFYGE 60
Query: 149 LCEFLSSGPVIAMV 162
L EF+SSGP + M+
Sbjct: 61 LVEFMSSGPCVPMI 74
>gnl|CDD|237749 PRK14543, PRK14543, nucleoside diphosphate kinase; Provisional.
Length = 169
Score = 72.6 bits (178), Expect = 5e-16
Identities = 34/79 (43%), Positives = 50/79 (63%), Gaps = 5/79 (6%)
Query: 89 MERTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKIVVPSKEFAQKH--YHDLKER--- 143
+++T IKPDGV+RGLI ++SRFER G K+VA K+++ + A+KH Y D+ R
Sbjct: 5 IQKTLCIIKPDGVRRGLIGNVVSRFERVGLKIVAAKMLLVDRSMAEKHYLYDDIAVRHGE 64
Query: 144 PFFNGLCEFLSSGPVIAMV 162
+ L +F+SS PV V
Sbjct: 65 AVWKSLIKFISSSPVFVFV 83
>gnl|CDD|184734 PRK14545, PRK14545, nucleoside diphosphate kinase; Provisional.
Length = 139
Score = 71.5 bits (175), Expect = 6e-16
Identities = 29/72 (40%), Positives = 42/72 (58%)
Query: 91 RTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKIVVPSKEFAQKHYHDLKERPFFNGLC 150
RTF IKPD V+ G I I+ GF++VA+K+ + A+ Y ERPF+ L
Sbjct: 5 RTFTMIKPDAVENGHIGGILDMITAAGFRIVAMKLTQLTVADAETFYAVHAERPFYGELV 64
Query: 151 EFLSSGPVIAMV 162
EF+S GP++A +
Sbjct: 65 EFMSRGPIVAAI 76
>gnl|CDD|173010 PRK14544, PRK14544, nucleoside diphosphate kinase; Provisional.
Length = 183
Score = 67.1 bits (164), Expect = 8e-14
Identities = 36/107 (33%), Positives = 55/107 (51%), Gaps = 33/107 (30%)
Query: 89 MERTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKIVVPSKEFAQKHYH---------- 138
+ERT + +KPD V+RGL+ EIISRFE+ G K+VA+K+V + E ++ Y
Sbjct: 3 IERTLVILKPDAVKRGLVGEIISRFEKAGLKIVAMKMVKATPEQIERFYPSSEEWYRSVG 62
Query: 139 ------------DLKER-----PFFNG------LCEFLSSGPVIAMV 162
D + R P G L ++++SGP++AMV
Sbjct: 63 NKLLKAYQELGIDPRARLGTDDPVEVGKKVKESLVKYMTSGPIVAMV 109
>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 = 64.8 bits (158), Expect = 1e-13
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 90 ERTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKIVVPSKEFAQKHYHDLKERPFFNGL 149
E+T IKPD + I +II E GF + K+ S++ AQ Y + + +PF+N L
Sbjct: 1 EKTLALIKPDAYSK--IGKIIQIIEDAGFTITKAKMTKLSRKEAQDFYAEHQSKPFYNEL 58
Query: 150 CEFLSSGPVIAM 161
+F++SGP++AM
Sbjct: 59 VQFMTSGPIVAM 70
>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 = 54.5 bits (132), Expect = 1e-09
Identities = 26/73 (35%), Positives = 44/73 (60%), Gaps = 1/73 (1%)
Query: 90 ERTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKIVVPSKEFAQKHYHDLKERPFFNGL 149
E T IKPD V EI+ + + GF+++A K +V ++E A++ Y + +E +F L
Sbjct: 1 EYTLALIKPDAVAEK-KDEILEKIKEAGFEILAQKEMVLTEEQAREFYKEHEEEDYFEDL 59
Query: 150 CEFLSSGPVIAMV 162
EF++SGP + +V
Sbjct: 60 VEFMTSGPSLILV 72
>gnl|CDD|215503 PLN02931, PLN02931, nucleoside diphosphate kinase family protein.
Length = 177
Score = 53.7 bits (129), Expect = 5e-09
Identities = 26/77 (33%), Positives = 37/77 (48%)
Query: 86 AAEMERTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKIVVPSKEFAQKHYHDLKERPF 145
A+E ERT IKPDG+ I GF +V ++ A Y + R F
Sbjct: 26 ASEEERTLAMIKPDGLSGNYTERIKEVILESGFSIVKEMTTQLDEDRASLFYAEHSSRSF 85
Query: 146 FNGLCEFLSSGPVIAMV 162
F L ++++SGPV+ MV
Sbjct: 86 FPSLVKYMTSGPVLVMV 102
>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 = 50.1 bits (120), Expect = 4e-08
Identities = 26/73 (35%), Positives = 36/73 (49%), Gaps = 2/73 (2%)
Query: 90 ERTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKIVVPSKEFAQKHYHDLKERPFFNGL 149
ERT IKPD V + EI GF +V + + S E Y + + FF L
Sbjct: 1 ERTLAIIKPDAVHKA--EEIEDIILESGFTIVQKRKLQLSPEQCSDFYAEHYGKMFFPHL 58
Query: 150 CEFLSSGPVIAMV 162
++SSGP++AMV
Sbjct: 59 VAYMSSGPIVAMV 71
>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 = 49.7 bits (119), Expect = 5e-08
Identities = 23/74 (31%), Positives = 39/74 (52%), Gaps = 1/74 (1%)
Query: 90 ERTFIAIKPDGVQRGLISEIISRF-ERKGFKLVAIKIVVPSKEFAQKHYHDLKERPFFNG 148
+ T IKPD V L E + + GF +V K + + E A++ Y + K + F++
Sbjct: 1 QLTLALIKPDAVAHPLALEAVRQLILSNGFTIVRKKELRWTTEDAERFYAEHKGKFFYDR 60
Query: 149 LCEFLSSGPVIAMV 162
L F++SGP A++
Sbjct: 61 LVSFMTSGPSWALI 74
>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 = 48.8 bits (117), Expect = 1e-07
Identities = 21/74 (28%), Positives = 38/74 (51%), Gaps = 5/74 (6%)
Query: 91 RTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKIVVPSKEFAQ---KHYHDLKERPFFN 147
T IKP V GL+ EI+ + +GF++ A+++ ++ A+ + Y P
Sbjct: 2 CTVCIIKPHAVSHGLLGEILQQILDEGFEITALQMFNLTRANAEEFLEVYKG--VVPELP 59
Query: 148 GLCEFLSSGPVIAM 161
+ + L+SGP IA+
Sbjct: 60 AMVDELTSGPCIAL 73
>gnl|CDD|225003 COG2092, EFB1, Translation elongation factor EF-1beta [Translation,
ribosomal structure and biogenesis].
Length = 88
Score = 29.6 bits (67), Expect = 0.31
Identities = 17/51 (33%), Positives = 22/51 (43%), Gaps = 7/51 (13%)
Query: 83 EVHAAEMERTFIAIKPDGVQRGLISEIISRFERKGFKLVAIK--IVVPSKE 131
EV E+E P+G + I E E F L A+K +VV KE
Sbjct: 16 EVDLEELEEKIKEKLPEGYELIKIEE-----EPIAFGLKALKLYVVVEDKE 61
>gnl|CDD|237215 PRK12815, carB, carbamoyl phosphate synthase large subunit;
Reviewed.
Length = 1068
Score = 30.7 bits (70), Expect = 0.62
Identities = 13/52 (25%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 72 IPAAAYTLQEQ-EVHAAEMERTFIAIKPDGVQRGLISEIISRFERKGFKLVA 122
+ A Y E ++H FI+++ + ++++ RF + GFKL+A
Sbjct: 919 LEEALYKGYEASDLHIPSYGTIFISVRDEDKPE--VTKLARRFAQLGFKLLA 968
>gnl|CDD|215053 PLN00094, PLN00094, aconitate hydratase 2; Provisional.
Length = 938
Score = 30.7 bits (69), Expect = 0.68
Identities = 29/110 (26%), Positives = 47/110 (42%), Gaps = 7/110 (6%)
Query: 6 VRSASRAATARSLLSASKNSRFYSEGRAVSAAAAVTFSGKLPYLVSSFGRAGSSTASRSW 65
+ + T +SL+ + ++ A + + LP L + R+ S
Sbjct: 1 MNVRAAHRTLQSLVRVRSFGLLGTRLSRCTSDTARSSTTLLPLLRT---RSTGVIPVISL 57
Query: 66 LSGAIAIPAAAYTLQEQEVHAAEMERTFIAIKP-DGVQRGLISEIISRFE 114
S A A +A+ L E E H AE + IA KP D Q +SE+I++ E
Sbjct: 58 QSSASATVSASGFLAEYEAHVAERAQEGIAPKPLDAKQ---VSELIAQLE 104
>gnl|CDD|218948 pfam06230, DUF1009, Protein of unknown function (DUF1009). Family
of uncharacterized bacterial proteins.
Length = 212
Score = 29.4 bits (67), Expect = 1.4
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 104 GLISEIISRFERKGFKLVAIKIVVP 128
L+ +I FE +GFK+V V P
Sbjct: 52 ALLRAVIREFEEEGFKVVGAHEVAP 76
>gnl|CDD|238005 cd00046, DEXDc, DEAD-like helicases superfamily. A diverse family
of proteins involved in ATP-dependent RNA or DNA
unwinding. This domain contains the ATP-binding region.
Length = 144
Score = 28.5 bits (64), Expect = 1.9
Identities = 10/48 (20%), Positives = 18/48 (37%), Gaps = 2/48 (4%)
Query: 109 IISRFERKGFKLVAIKIVVPSKEFAQKHYHDLKERPFFNGLCEFLSSG 156
I+ + V + + P++E A + LKE +L G
Sbjct: 21 ILELLDSLKGGQVLV--LAPTRELANQVAERLKELFGEGIKVGYLIGG 66
>gnl|CDD|199860 cd06236, M14_AGBL5_like, Peptidase M14-like domain of ATP/GTP
binding protein (AGBL)-5 and related proteins.
Peptidase M14-like domain of ATP/GTP binding
protein_like (AGBL)-5, and related proteins. The
Peptidase M14 family of metallocarboxypeptidases are
zinc-binding carboxypeptidases (CPs) which hydrolyze
single, C-terminal amino acids from polypeptide chains,
and have a recognition site for the free C-terminal
carboxyl group, which is a key determinant of
specificity. This eukaryotic subgroup includes the human
AGBL5 and the mouse cytosolic carboxypeptidase (CCP)-5.
ATP/GTP binding protein (AGTPBP-1/Nna1)-like proteins
are active metallopeptidases that are thought to act on
cytosolic proteins such as alpha-tubulin, to remove a
C-terminal tyrosine. Mutations in AGTPBP-1/Nna1 cause
Purkinje cell degeneration (pcd). AGTPBP-1/Nna1 however
does not belong to this subgroup. AGTPBP-1/Nna1-like
proteins from the different phyla are highly diverse,
but they all contain a unique N-terminal conserved
domain right before the CP domain. It has been suggested
that this N-terminal domain might act as a folding
domain.
Length = 308
Score = 28.9 bits (65), Expect = 2.0
Identities = 19/75 (25%), Positives = 33/75 (44%), Gaps = 11/75 (14%)
Query: 35 SAAAAVTFSGKLPYLVSSFGRAGSSTASRSWLSGAIAIPAAAYTLQEQEVHAAEMERTFI 94
S F+GK + +SS G + +S +G + + L++ + A + R F+
Sbjct: 57 STPRPFRFTGKRVFFLSSRVHPGETPSSFV-FNGFLK-----FLLRKDDPRAQALRRNFV 110
Query: 95 -----AIKPDGVQRG 104
+ PDGV RG
Sbjct: 111 FKLIPMLNPDGVYRG 125
>gnl|CDD|226895 COG4502, COG4502, 5'(3')-deoxyribonucleotidase [Nucleotide
transport and metabolism].
Length = 180
Score = 28.3 bits (63), Expect = 2.6
Identities = 22/67 (32%), Positives = 28/67 (41%), Gaps = 6/67 (8%)
Query: 89 MERTFIAIKPDGVQRGLISEIISR---FERKGFKLVAI---KIVVPSKEFAQKHYHDLKE 142
M + IAI D V L+ E + R ++ K K+ I I K K Y LKE
Sbjct: 1 MNKKTIAIDMDTVLADLLREWVKRYNIYKDKLLKMSDIKGWDIKNYVKPECGKIYDILKE 60
Query: 143 RPFFNGL 149
FF L
Sbjct: 61 PHFFRNL 67
>gnl|CDD|188055 TIGR00493, clpP, ATP-dependent Clp endopeptidase, proteolytic
subunit ClpP. This model for the proteolytic subunit
ClpP has been rebuilt to a higher stringency. In every
bacterial genome with the ClpXP machine, a ClpP protein
will be found that scores at least 370 by This model. In
general, this ClpP member will be encoded adjacent to
the clpX gene, as were all examples used in the seed
alignment. A large fraction of genomes have one or more
additional ClpP paralogs, sometimes encoded nearby and
sometimes elsewhere. The stringency of the trusted
cutoff used here excludes the more divergent ClpP
paralogs from being called authentic ClpP by this model
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 192
Score = 27.8 bits (62), Expect = 3.4
Identities = 11/38 (28%), Positives = 19/38 (50%)
Query: 75 AAYTLQEQEVHAAEMERTFIAIKPDGVQRGLISEIISR 112
A +T Q E + ER F + + GLI ++++R
Sbjct: 155 AEHTGQSLEQIERDTERDFFMSAEEAKEYGLIDKVLTR 192
>gnl|CDD|221122 pfam11490, DNA_pol3_alph_N, DNA polymerase III polC-type
N-terminus. This is an N-terminal domain of DNA
polymerase III polC subunit A that is found only in
Firmicutes. DNA polymerase polC-type III enzyme
functions as the 'replicase' in low G + C Gram-positive
bacteria. Purine asymmetry is a characteristic of
organisms with a heterodimeric DNA polymerase III
alpha-subunit constituted by polC which probably plays a
direct role in the maintenance of strand-biased gene
distribution; since, among prokaryotic genomes, the
distribution of genes on the leading and lagging strands
of the replication fork is known to be biased. The
domain is associated with DNA_pol3_alpha pfam07733.
Length = 180
Score = 27.3 bits (61), Expect = 5.1
Identities = 11/75 (14%), Positives = 30/75 (40%), Gaps = 5/75 (6%)
Query: 72 IPAAAYTLQEQEVHAAEMERTFIAIKPDGVQRGLISE----IISRFERKGFKLVAIKIVV 127
P+ L++Q+ + I + + L + ++ + + GF + I + V
Sbjct: 77 SPSLKSLLKKQKPELEG-NKLIIKVPNEIEANFLKKKKLDKLLEEYIKFGFGKLKIDVEV 135
Query: 128 PSKEFAQKHYHDLKE 142
E +++ + +E
Sbjct: 136 DEDESSEEEIEEFEE 150
>gnl|CDD|151156 pfam10640, Pox_ATPase-GT, mRNA capping enzyme N-terminal, ATPase
and guanylyltransferase. This domain is the N-terminus
of the large subunit viral mRNA capping enzyme, and
carries both the ATPase and the guanylyltransferase
activities of the enzyme. The guanylyltransferase
enzymatic region runs from residues 242
(leucine)-273(arginine), the core of the acitve site
being the lysine residue at 260. The ATPase activity is
at the very N-terminal part of the domain.
Length = 314
Score = 27.6 bits (62), Expect = 5.9
Identities = 10/36 (27%), Positives = 20/36 (55%)
Query: 66 LSGAIAIPAAAYTLQEQEVHAAEMERTFIAIKPDGV 101
++ I P + L++Q++ ++E +I K DGV
Sbjct: 206 VTPNIKPPVKTHMLKKQDLPTLDLENLYITSKTDGV 241
>gnl|CDD|114473 pfam05749, Rubella_E2, Rubella membrane glycoprotein E2. Rubella
virus (RV), the sole member of the genus Rubivirus
within the family Togaviridae, is a small enveloped,
positive strand RNA virus. The nucleocapsid consists of
40S genomic RNA and a single species of capsid protein
which is enveloped within a host-derived lipid bilayer
containing two viral glycoproteins, E1 (58 kDa) and E2
(42-46 kDa). In virus infected cells, RV matures by
budding either at the plasma membrane, or at the
internal membranes depending on the cell type and enters
adjacent uninfected cells by a membrane fusion process
in the endosome, directed by E1-E2 heterodimers. The
heterodimer formation is crucial for E1 transport out of
the endoplasmic reticulum to the Golgi and plasma
membrane. In RV E1, a cysteine at position 82 is crucial
for the E1-E2 heterodimer formation and cell surface
expression of the two proteins.
Length = 267
Score = 27.4 bits (60), Expect = 6.6
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 45 KLPYLVSSFGRAGSSTASRSWLSGAIAI 72
+ P LVS GRA S AS WL+ A A+
Sbjct: 206 RCPELVSPMGRATCSPASALWLATANAL 233
>gnl|CDD|214894 smart00897, FIST, FIST N domain. The FIST N domain is a novel
sensory domain, which is present in signal transduction
proteins from Bacteria, Archaea and Eukarya. Chromosomal
proximity of FIST-encoding genes to those coding for
proteins involved in amino acid metabolism and transport
suggest that FIST domains bind small ligands, such as
amino acids.
Length = 196
Score = 26.9 bits (60), Expect = 7.1
Identities = 13/41 (31%), Positives = 16/41 (39%), Gaps = 5/41 (12%)
Query: 19 LSASKNSRF-----YSEGRAVSAAAAVTFSGKLPYLVSSFG 54
SA N RF ++ GR S A V F G L +
Sbjct: 131 GSAGDNLRFQETYVFTNGRVHSGAVVVAFGGGLRFGTGVTQ 171
>gnl|CDD|177891 PLN02249, PLN02249, indole-3-acetic acid-amido synthetase.
Length = 597
Score = 27.3 bits (60), Expect = 8.8
Identities = 31/96 (32%), Positives = 41/96 (42%), Gaps = 17/96 (17%)
Query: 75 AAYTLQEQEVHA----AEMERTFIAIKPDGVQRGLISEIISRFERKGF-KLVAIKIVVPS 129
A+ T E++V A EM R PD VQ ++ EI+SR + K + V
Sbjct: 12 ASPTTSEKDVKALKFIEEMTRN-----PDSVQEKVLGEILSRNSNTEYLKRFDLNGAVDR 66
Query: 130 KEFAQK----HYHDLKE--RPFFNGLCE-FLSSGPV 158
K F K Y DLK + NG LSS P+
Sbjct: 67 KTFKSKVPVVTYEDLKTEIQRISNGDRSPILSSHPI 102
>gnl|CDD|205069 pfam12779, YXWGXW, YXWGXW repeat (2 copies). This short repeat
contains the motif YXWXXGXW where X can be any amino
acid. It is generally found in 2-5 copies in short
secreted bacterial proteins. Its function is as yet
unknown.
Length = 23
Score = 24.0 bits (53), Expect = 9.6
Identities = 7/16 (43%), Positives = 8/16 (50%)
Query: 191 GSYYVWSQTHWSHRSS 206
G YYVW +W S
Sbjct: 1 GPYYVWRPGYWYRSYS 16
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
0.321 0.131 0.391
Gapped
Lambda K H
0.267 0.0728 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,533,466
Number of extensions: 1091626
Number of successful extensions: 1140
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1133
Number of HSP's successfully gapped: 41
Length of query: 230
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 136
Effective length of database: 6,768,326
Effective search space: 920492336
Effective search space used: 920492336
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 (21.9 bits)
S2: 57 (25.7 bits)