RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10709
(348 letters)
>gnl|CDD|148383 pfam06747, CHCH, CHCH domain. we have identified a conserved motif
in the LOC118487 protein that we have called the CHCH
motif. Alignment of this protein with related members
showed the presence of three subgroups of proteins,
which are called the S (Small), N (N-terminal extended)
and C (C-terminal extended) subgroups. All three
sub-groups of proteins have in common that they contain
a predicted conserved [coiled coil 1]-[helix 1]-[coiled
coil 2]-[helix 2] domain (CHCH domain). Within each
helix of the CHCH domain, there are two cysteines
present in a C-X9-C motif. The N-group contains an
additional double helix domain, and each helix contains
the C-X9-C motif. This family contains a number of
characterized proteins: Cox19 protein - a nuclear gene
of Saccharomyces cerevisiae, codes for an 11-kDa protein
(Cox19p) required for expression of cytochrome oxidase.
Because cox19 mutants are able to synthesise the
mitochondrial and nuclear gene products of cytochrome
oxidase, Cox19p probably functions post-translationally
during assembly of the enzyme. Cox19p is present in the
cytoplasm and mitochondria, where it exists as a soluble
intermembrane protein. This dual location is similar to
what was previously reported for Cox17p, a low molecular
weight copper protein thought to be required for
maturation of the CuA centre of subunit 2 of cytochrome
oxidase. Cox19p have four conserved potential metal
ligands, these are three cysteines and one histidine.
Mrp10 - belongs to the class of yeast mitochondrial
ribosomal proteins that are essential for translation.
Eukaryotic NADH-ubiquinone oxidoreductase 19 kDa
(NDUFA8) subunit. The CHCH domain was previously called
DUF657.
Length = 35
Score = 37.2 bits (87), Expect = 4e-04
Identities = 9/37 (24%), Positives = 17/37 (45%), Gaps = 2/37 (5%)
Query: 263 CGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQ 299
CG +F+ C ++DE C + F + C+ +
Sbjct: 1 CGEEFKAFLKCLKENSDE--LSKCRKEFDAFRQCVKK 35
Score = 27.2 bits (61), Expect = 1.2
Identities = 6/18 (33%), Positives = 10/18 (55%)
Query: 59 CGVQFREAFSCFHYSTDE 76
CG +F+ C ++DE
Sbjct: 1 CGEEFKAFLKCLKENSDE 18
>gnl|CDD|216773 pfam01900, RNase_P_Rpp14, Rpp14/Pop5 family. tRNA processing
enzyme ribonuclease P (RNase P) consists of an RNA
molecule associated with at least eight protein
subunits, hPop1, Rpp14, Rpp20, Rpp25, Rpp29, Rpp30,
Rpp38, and Rpp40. This protein is known as Pop5 in
eukaryotes.
Length = 103
Score = 36.7 bits (86), Expect = 0.002
Identities = 13/63 (20%), Positives = 19/63 (30%), Gaps = 11/63 (17%)
Query: 149 FNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLNLLSRLTLTMSTC 208
FNP ILRC + + +LT P S T+ C
Sbjct: 49 FNPKTGTGILRCRRGYVRLVWAALTLITSIGGKPVIIRVLGVSG-----------TIKKC 97
Query: 209 QRE 211
+ +
Sbjct: 98 EEK 100
>gnl|CDD|216833 pfam01991, vATP-synt_E, ATP synthase (E/31 kDa) subunit. This
family includes the vacuolar ATP synthase E subunit, as
well as the archaebacterial ATP synthase E subunit.
Length = 195
Score = 32.7 bits (75), Expect = 0.18
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 323 IRKEAQEKADRIIEQAD 339
IR+EA+EKA+ I +A+
Sbjct: 2 IRQEAEEKAEEIRAEAE 18
>gnl|CDD|224308 COG1390, NtpE, Archaeal/vacuolar-type H+-ATPase subunit E [Energy
production and conversion].
Length = 194
Score = 31.6 bits (72), Expect = 0.36
Identities = 10/27 (37%), Positives = 19/27 (70%), Gaps = 2/27 (7%)
Query: 313 DLDDDVKDVSIRKEAQEKADRIIEQAD 339
+L+ +K I +EA+E+A+ I+E+A
Sbjct: 3 ELEKLIKK--ILREAEEEAEEILEEAR 27
>gnl|CDD|180240 PRK05759, PRK05759, F0F1 ATP synthase subunit B; Validated.
Length = 156
Score = 30.5 bits (70), Expect = 0.67
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 323 IRKEAQEKADRIIEQADS 340
+ EA+ +A RI QA +
Sbjct: 90 AKAEAEAEAARIKAQAQA 107
>gnl|CDD|109486 pfam00430, ATP-synt_B, ATP synthase B/B' CF(0). Part of the CF(0)
(base unit) of the ATP synthase. The base unit is
thought to translocate protons through membrane (inner
membrane in mitochondria, thylakoid membrane in plants,
cytoplasmic membrane in bacteria). The B subunits are
thought to interact with the stalk of the CF(1)
subunits. This domain should not be confused with the ab
CF(1) proteins (in the head of the ATP synthase) which
are found in pfam00006.
Length = 132
Score = 29.9 bits (68), Expect = 0.97
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 322 SIRKEAQEKADRIIEQA 338
I EAQ+ A+R++E A
Sbjct: 84 EILAEAQKDAERLLESA 100
>gnl|CDD|235026 PRK02292, PRK02292, V-type ATP synthase subunit E; Provisional.
Length = 188
Score = 30.4 bits (69), Expect = 1.0
Identities = 12/34 (35%), Positives = 18/34 (52%), Gaps = 9/34 (26%)
Query: 314 LDDDVKDV---------SIRKEAQEKADRIIEQA 338
L+ V+D+ IR EA E+A+ II +A
Sbjct: 3 LETVVEDIRDEARARASEIRAEADEEAEEIIAEA 36
>gnl|CDD|202599 pfam03340, Pox_Rif, Poxvirus rifampicin resistance protein.
Length = 541
Score = 30.4 bits (69), Expect = 1.5
Identities = 22/76 (28%), Positives = 37/76 (48%), Gaps = 8/76 (10%)
Query: 79 GDLRSTKSRATTILMCDGVLKSNETFKDWLSNIYRKSIQTTNQHMTVIHNFKPPVPMYY- 137
GD RS KS+A + + D +K + F + L I R ++ N+ VI++ P+ Y
Sbjct: 402 GDNRSAKSKAKDLFINDPFIKGID-FLNKLDIISRMEVRFGNE---VIYSENSPISNIYN 457
Query: 138 ---TGAGVPIDLLKFN 150
+G + L+FN
Sbjct: 458 YLLSGCLYGVRKLRFN 473
>gnl|CDD|180481 PRK06231, PRK06231, F0F1 ATP synthase subunit B; Validated.
Length = 205
Score = 29.4 bits (66), Expect = 1.9
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 322 SIRKEAQEKADRIIEQA 338
+ KEA +A+ II QA
Sbjct: 133 ELEKEANRQANLIIFQA 149
>gnl|CDD|234701 PRK00252, alaS, alanyl-tRNA synthetase; Reviewed.
Length = 865
Score = 30.1 bits (69), Expect = 2.1
Identities = 10/17 (58%), Positives = 11/17 (64%)
Query: 86 SRATTILMCDGVLKSNE 102
RA L+ DGVL SNE
Sbjct: 274 IRAVAFLIADGVLPSNE 290
>gnl|CDD|185438 PTZ00087, PTZ00087, thrombosponding-related protein; Provisional.
Length = 340
Score = 29.1 bits (65), Expect = 3.0
Identities = 19/50 (38%), Positives = 25/50 (50%), Gaps = 3/50 (6%)
Query: 58 PCGVQFREAFSCFHYSTDEPKGDLRSTKSRATTILMCDGV--LKSNETFK 105
P VQ RE C H S D KGDL+ T+ + C+ + K + TFK
Sbjct: 249 PDNVQIRER-KCAHPSGDCFKGDLKETRPCQVPLPPCNSLFEHKESSTFK 297
>gnl|CDD|179204 PRK01005, PRK01005, V-type ATP synthase subunit E; Provisional.
Length = 207
Score = 28.6 bits (64), Expect = 4.4
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 323 IRKEAQEKADRIIEQADSGSSHTNKK 348
I EAQE+A++II A+ + K+
Sbjct: 43 IIAEAQEEAEKIIRSAEETADQKLKQ 68
>gnl|CDD|217887 pfam04090, RNA_pol_I_TF, RNA polymerase I specific initiation
factor.
Length = 192
Score = 28.1 bits (63), Expect = 4.8
Identities = 18/74 (24%), Positives = 29/74 (39%), Gaps = 5/74 (6%)
Query: 66 AFSCFHYSTDEPKGDLRSTKSRATTILMCDGVLKSNETFKDWLSNIYRKSIQTTNQHMTV 125
A+ F P D+RS + IL S+E F +WLS+ Y
Sbjct: 60 AYRIFCLLIRLPSVDIRSIWPLGSEILNNLNEETSSEKFLEWLSSFYSSKSSFNQS---- 115
Query: 126 IHNFKPPVPMYYTG 139
N++ P++ +G
Sbjct: 116 -TNYRSLAPVFRSG 128
>gnl|CDD|100796 PRK01156, PRK01156, chromosome segregation protein; Provisional.
Length = 895
Score = 28.3 bits (63), Expect = 6.9
Identities = 8/42 (19%), Positives = 18/42 (42%)
Query: 299 QYPTLYKQNDDDDEDLDDDVKDVSIRKEAQEKADRIIEQADS 340
+ Y + + DL+D ++ K+ +K + I + S
Sbjct: 516 KSINEYNKIESARADLEDIKIKINELKDKHDKYEEIKNRYKS 557
>gnl|CDD|233860 TIGR02421, QEGLA, conserved hypothetical protein. Members of this
family include a possible metal-binding motif HEXXXH
and, nearby, a perfectly conserved motif QEGLA. All
members belong to the Proteobacteria, including
Agrobacterium tumefaciens and several species of Vibrio
and Pseudomonas, and are found in only one copy per
chromosome (Vibrio vulnificus, with two chromosomes, has
two). The function is unknown.
Length = 366
Score = 28.1 bits (63), Expect = 7.3
Identities = 6/26 (23%), Positives = 11/26 (42%)
Query: 275 HYSTDEPKGVNCFEAFKTMQDCMAQY 300
+E V+ EA + +Q + Y
Sbjct: 125 AMEEEEQAPVSATEAAEILQQRLEDY 150
>gnl|CDD|176463 cd01359, Argininosuccinate_lyase, Argininosuccinate lyase
(argininosuccinase, ASAL). This group contains ASAL and
related proteins. It is a member of the Lyase class I
family. Members of this family for the most part
catalyze similar beta-elimination reactions in which a
C-N or C-O bond is cleaved with the release of fumarate
as one of the products. These proteins are active as
tetramers. The four active sites of the homotetrameric
enzyme are each formed by residues from three different
subunits. ASAL is a cytosolic enzyme which catalyzes the
reversible breakdown of argininosuccinate to arginine
and fumarate during arginine biosynthesis. In ureotelic
species ASAL also catalyzes a reaction involved in the
production of urea. Included in this group are the major
soluble avian eye lens proteins from duck, delta 1 and
delta 2 crystallin. Of these two isoforms only delta 2
has retained ASAL activity. These crystallins may have
evolved by, gene recruitment of ASAL followed by gene
duplication. In humans, mutations in ASAL result in the
autosomal recessive disorder argininosuccinic aciduria.
Length = 435
Score = 27.9 bits (63), Expect = 10.0
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 194 LLNLLSRLTLTMSTCQREGKDFIIFATKE 222
+L LS L M R +D I+++T+E
Sbjct: 213 VLEFLSAAALLMVHLSRLAEDLILWSTQE 241
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 0.136 0.431
Gapped
Lambda K H
0.267 0.0790 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,424,300
Number of extensions: 1618439
Number of successful extensions: 1826
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1825
Number of HSP's successfully gapped: 19
Length of query: 348
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 250
Effective length of database: 6,590,910
Effective search space: 1647727500
Effective search space used: 1647727500
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: 59 (26.4 bits)