RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16868
(109 letters)
>gnl|CDD|213239 cd03272, ABC_SMC3_euk, ATP-binding cassette domain of eukaryotic
SMC3 proteins. The structural maintenance of
chromosomes (SMC) proteins are large (approximately 110
to 170 kDa), and each is arranged into five recognizable
domains. Amino-acid sequence homology of SMC proteins
between species is largely confined to the amino- and
carboxy-terminal globular domains. The amino-terminal
domain contains a 'Walker A' nucleotide-binding domain
(GxxGxGKS/T, in the single-letter amino-acid code),
which by mutational studies has been shown to be
essential in several proteins. The carboxy-terminal
domain contains a sequence (the DA-box) that resembles a
'Walker B' motif, and a motif with homology to the
signature sequence of the ATP-binding cassette (ABC)
family of ATPases. The sequence homology within the
carboxy-terminal domain is relatively high within the
SMC1-SMC4 group, whereas SMC5 and SMC6 show some
divergence in both of these sequences. In eukaryotic
cells, the proteins are found as heterodimers of SMC1
paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6
(formerly known as Rad18).
Length = 243
Score = 166 bits (423), Expect = 2e-53
Identities = 72/109 (66%), Positives = 86/109 (78%), Gaps = 5/109 (4%)
Query: 3 IKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSDSR 62
IKQVII GFKSYK+QTV+EPF +HNVVVGRNGSGKSNFF AI+FVLSDE T LR + R
Sbjct: 1 IKQVIIQGFKSYKDQTVIEPFSPKHNVVVGRNGSGKSNFFAAIRFVLSDEYTHLR-EEQR 59
Query: 63 QALLHEGTGPRVVNAYVEIVFDNTDHRVPGF---IRCRSTSVDLYRCSY 108
QALLHEG+GP V++AYVEI+FDN+D+R P +R R T + L + Y
Sbjct: 60 QALLHEGSGPSVMSAYVEIIFDNSDNRFPIDKEEVRLRRT-IGLKKDEY 107
>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain. This domain
is found at the N terminus of SMC proteins. The SMC
(structural maintenance of chromosomes) superfamily
proteins have ATP-binding domains at the N- and
C-termini, and two extended coiled-coil domains
separated by a hinge in the middle. The eukaryotic SMC
proteins form two kind of heterodimers: the SMC1/SMC3
and the SMC2/SMC4 types. These heterodimers constitute
an essential part of higher order complexes, which are
involved in chromatin and DNA dynamics. This family
also includes the RecF and RecN proteins that are
involved in DNA metabolism and recombination.
Length = 1162
Score = 126 bits (317), Expect = 5e-35
Identities = 43/92 (46%), Positives = 55/92 (59%), Gaps = 4/92 (4%)
Query: 2 YIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDES-TSLRHSD 60
Y+K++ I GFKSY + TV+ PF +VG NGSGKSN AI FVL + S SLR S+
Sbjct: 1 YLKRIEIEGFKSYAK-TVILPFSPGFTAIVGPNGSGKSNILDAILFVLGERSAKSLR-SE 58
Query: 61 SRQALLHEG-TGPRVVNAYVEIVFDNTDHRVP 91
L+H +G V +A V I FDN D +P
Sbjct: 59 RLSDLIHYSKSGAFVNSAEVTITFDNEDKELP 90
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 111 bits (280), Expect = 5e-30
Identities = 37/97 (38%), Positives = 55/97 (56%), Gaps = 5/97 (5%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTS-LRHS 59
MY+K++ + GFKS+ + T + F +VG NGSGKSN AI+FVL ++S LR +
Sbjct: 1 MYLKRIELKGFKSFADPTEI-NFSPGFTAIVGPNGSGKSNIVDAIRFVLGEQSAKNLR-A 58
Query: 60 DSRQALLHEGTG--PRVVNAYVEIVFDNTDHRVPGFI 94
L+ G+G A VE+ FDN+D+ +P
Sbjct: 59 SKMSDLIFAGSGNRKPANYAEVELTFDNSDNTLPLEY 95
>gnl|CDD|213206 cd03239, ABC_SMC_head, The SMC head domain belongs to the
ATP-binding cassette superfamily. The structural
maintenance of chromosomes (SMC) proteins are essential
for successful chromosome transmission during
replication and segregation of the genome in all
organisms. SMCs are generally present as single
proteins in bacteria, and as at least six distinct
proteins in eukaryotes. The proteins range in size from
approximately 110 to 170 kDa, and each has five
distinct domains: amino- and carboxy-terminal globular
domains, which contain sequences characteristic of
ATPases, two coiled-coil regions separating the
terminal domains , and a central flexible hinge. SMC
proteins function together with other proteins in a
range of chromosomal transactions, including chromosome
condensation, sister-chromatid cohesion, recombination,
DNA repair, and epigenetic silencing of gene
expression.
Length = 178
Score = 93.9 bits (234), Expect = 1e-25
Identities = 36/83 (43%), Positives = 47/83 (56%), Gaps = 2/83 (2%)
Query: 3 IKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSDSR 62
IKQ+ + FKSY+++TVV + N +VG NGSGKSN AI FVL ++ LR S
Sbjct: 1 IKQITLKNFKSYRDETVVGGSN-SFNAIVGPNGSGKSNIVDAICFVLGGKAAKLR-RGSL 58
Query: 63 QALLHEGTGPRVVNAYVEIVFDN 85
L G + +A VEI FD
Sbjct: 59 LFLAGGGVKAGINSASVEITFDK 81
>gnl|CDD|213240 cd03273, ABC_SMC2_euk, ATP-binding cassette domain of eukaryotic
SMC2 proteins. The structural maintenance of
chromosomes (SMC) proteins are large (approximately 110
to 170 kDa), and each is arranged into five recognizable
domains. Amino-acid sequence homology of SMC proteins
between species is largely confined to the amino- and
carboxy-terminal globular domains. The amino-terminal
domain contains a 'Walker A' nucleotide-binding domain
(GxxGxGKS/T, in the single-letter amino-acid code),
which by mutational studies has been shown to be
essential in several proteins. The carboxy-terminal
domain contains a sequence (the DA-box) that resembles a
'Walker B' motif, and a motif with homology to the
signature sequence of the ATP-binding cassette (ABC)
family of ATPases. The sequence homology within the
carboxy-terminal domain is relatively high within the
SMC1-SMC4 group, whereas SMC5 and SMC6 show some
divergence in both of these sequences. In eukaryotic
cells, the proteins are found as heterodimers of SMC1
paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6
(formerly known as Rad18).
Length = 251
Score = 87.7 bits (218), Expect = 1e-22
Identities = 41/103 (39%), Positives = 58/103 (56%), Gaps = 2/103 (1%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSD 60
M+IK++I+ GFKSY +TV+ FD + N + G NGSGKSN AI FVL + S +
Sbjct: 1 MHIKEIILDGFKSYATRTVISGFDPQFNAITGLNGSGKSNILDAICFVLGITNLSTVRAS 60
Query: 61 SRQALLHEGTGPRVVNAYVEIVFDNTDHRV--PGFIRCRSTSV 101
+ Q L+++ + A V IVFDN+D GF +V
Sbjct: 61 NLQDLIYKRGQAGITKASVTIVFDNSDKSQSPIGFENYPEITV 103
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing
and segregating chromosomes for partition. SMC proteins
are found in bacteria, archaea, and eukaryotes. This
family represents the SMC protein of most bacteria. The
smc gene is often associated with scpB (TIGR00281) and
scpA genes, where scp stands for segregation and
condensation protein. SMC was shown (in Caulobacter
crescentus) to be induced early in S phase but present
and bound to DNA throughout the cell cycle [Cellular
processes, Cell division, DNA metabolism,
Chromosome-associated proteins].
Length = 1179
Score = 78.9 bits (195), Expect = 1e-18
Identities = 35/94 (37%), Positives = 56/94 (59%), Gaps = 5/94 (5%)
Query: 2 YIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDEST-SLRHSD 60
+K++ + GFKS+ + T + FDK +VG NG GKSN AI++VL ++S +LR
Sbjct: 1 RLKKLELAGFKSFADPTTI-NFDKGITGIVGPNGCGKSNIVDAIRWVLGEQSAKALR-GG 58
Query: 61 SRQALLHEGTG--PRVVNAYVEIVFDNTDHRVPG 92
+ ++ G+ + A VE+VFDN+D +PG
Sbjct: 59 KMEDVIFNGSETRKPLSLAEVELVFDNSDGLLPG 92
>gnl|CDD|213245 cd03278, ABC_SMC_barmotin, ATP-binding cassette domain of
barmotin, a member of the SMC protein family. Barmotin
is a tight junction-associated protein expressed in rat
epithelial cells which is thought to have an important
regulatory role in tight junction barrier function.
Barmotin belongs to the SMC protein family. SMC
proteins are large (approximately 110 to 170 kDa), and
each is arranged into five recognizable domains.
Amino-acid sequence homology of SMC proteins between
species is largely confined to the amino- and
carboxy-terminal globular domains. The amino-terminal
domain contains a 'Walker A' nucleotide-binding domain
(GxxGxGKS/T, in the single-letter amino-acid code),
which by mutational studies has been shown to be
essential in several proteins. The carboxy-terminal
domain contains a sequence (the DA-box) that resembles
a 'Walker B' motif, and a motif with homology to the
signature sequence of the ATP-binding cassette (ABC)
family of ATPases. The sequence homology within the
carboxy-terminal domain is relatively high within the
SMC1-SMC4 group, whereas SMC5 and SMC6 show some
divergence in both of these sequences. In eukaryotic
cells, the proteins are found as heterodimers of SMC1
paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6
(formerly known as Rad18).
Length = 197
Score = 76.0 bits (188), Expect = 1e-18
Identities = 34/90 (37%), Positives = 53/90 (58%), Gaps = 5/90 (5%)
Query: 3 IKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDEST-SLRHSDS 61
+K++ + GFKS+ ++T + PF +VG NGSGKSN AI++VL ++S SLR +
Sbjct: 1 LKKLELKGFKSFADKTTI-PFPPGLTAIVGPNGSGKSNIIDAIRWVLGEQSAKSLR-GEK 58
Query: 62 RQALLHEGTGPR--VVNAYVEIVFDNTDHR 89
++ G+ R A V + FDN+D R
Sbjct: 59 MSDVIFAGSETRKPANFAEVTLTFDNSDGR 88
>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance
of chromosomes) proteins bind DNA and act in organizing
and segregating chromosomes for partition. SMC proteins
are found in bacteria, archaea, and eukaryotes. It is
found in a single copy and is homodimeric in
prokaryotes, but six paralogs (excluded from this
family) are found in eukarotes, where SMC proteins are
heterodimeric. This family represents the SMC protein
of archaea and a few bacteria (Aquifex, Synechocystis,
etc); the SMC of other bacteria is described by
TIGR02168. The N- and C-terminal domains of this
protein are well conserved, but the central hinge
region is skewed in composition and highly divergent
[Cellular processes, Cell division, DNA metabolism,
Chromosome-associated proteins].
Length = 1164
Score = 74.7 bits (184), Expect = 4e-17
Identities = 34/99 (34%), Positives = 51/99 (51%), Gaps = 3/99 (3%)
Query: 2 YIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSDS 61
YI+++ + FKS+ ++ V+ PF K V+ G NGSGKSN AI F L S+ ++
Sbjct: 1 YIERIELENFKSFGKKKVI-PFSKGFTVISGPNGSGKSNIGDAILFALGLSSSKAMRAER 59
Query: 62 RQALLHEGTGPRVVN-AYVEIVFDNTDHRVPGFIR-CRS 98
L+ G + N AYV + F N D + P + R
Sbjct: 60 LSDLISNGKNGQSGNEAYVTVTFKNDDGKFPDELEVVRR 98
>gnl|CDD|213242 cd03275, ABC_SMC1_euk, ATP-binding cassette domain of eukaryotic
SMC1 proteins. The structural maintenance of
chromosomes (SMC) proteins are large (approximately 110
to 170 kDa), and each is arranged into five recognizable
domains. Amino-acid sequence homology of SMC proteins
between species is largely confined to the amino- and
carboxy-terminal globular domains. The amino-terminal
domain contains a 'Walker A' nucleotide-binding domain
(GxxGxGKS/T, in the single-letter amino-acid code),
which by mutational studies has been shown to be
essential in several proteins. The carboxy-terminal
domain contains a sequence (the DA-box) that resembles a
'Walker B' motif, and a motif with homology to the
signature sequence of the ATP-binding cassette (ABC)
family of ATPases. The sequence homology within the
carboxy-terminal domain is relatively high within the
SMC1-SMC4 group, whereas SMC5 and SMC6 show some
divergence in both of these sequences. In eukaryotic
cells, the proteins are found as heterodimers of SMC1
paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6
(formerly known as Rad18).
Length = 247
Score = 71.4 bits (176), Expect = 2e-16
Identities = 38/105 (36%), Positives = 58/105 (55%), Gaps = 4/105 (3%)
Query: 3 IKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSDSR 62
+K++ + FKSYK + V+ PFD R ++G NGSGKSN AI FVL ++S+ LR + +
Sbjct: 1 LKRLELENFKSYKGRHVIGPFD-RFTCIIGPNGSGKSNLMDAISFVLGEKSSHLRSKNLK 59
Query: 63 QALLHEG--TGPRVVNAYVEIVFDNTDHRVPGFIRCRSTSVDLYR 105
L++ P +AYV V+++ D F R + YR
Sbjct: 60 D-LIYRARVGKPDSNSAYVTAVYEDDDGEEKTFRRIITGGSSSYR 103
>gnl|CDD|222160 pfam13476, AAA_23, AAA domain.
Length = 204
Score = 61.0 bits (148), Expect = 1e-12
Identities = 24/86 (27%), Positives = 41/86 (47%), Gaps = 5/86 (5%)
Query: 5 QVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSDSRQA 64
++ I F S+K+ + F K ++ G NGSGK+ AI++ L +++ L+ S R
Sbjct: 1 KLTIKNFGSFKDLEID--FSKGLTLIYGPNGSGKTTILDAIRWALYGKTSRLKKSKGRGI 58
Query: 65 LLHE---GTGPRVVNAYVEIVFDNTD 87
+ + YVEI F+N
Sbjct: 59 VKGDIEIEKDEGKKKTYVEITFENNK 84
>gnl|CDD|213194 cd03227, ABC_Class2, ATP-binding cassette domain of
non-transporter proteins. ABC-type Class 2 contains
systems involved in cellular processes other than
transport. These families are characterized by the fact
that the ABC subunit is made up of duplicated, fused
ABC modules (ABC2). No known transmembrane proteins or
domains are associated with these proteins.
Length = 162
Score = 59.7 bits (145), Expect = 1e-12
Identities = 18/79 (22%), Positives = 28/79 (35%), Gaps = 8/79 (10%)
Query: 5 QVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSDSRQA 64
++++ F SY V + ++ G NGSGKS AI L ++ R
Sbjct: 1 KIVLGRFPSYFVPNDVTFGEGSLTIITGPNGSGKSTILDAIGLALGGAQSATRR------ 54
Query: 65 LLHEGTGPRVVNAYVEIVF 83
G + A V
Sbjct: 55 --RSGVKAGCIVAAVSAEL 71
>gnl|CDD|213241 cd03274, ABC_SMC4_euk, ATP-binding cassette domain of eukaryotic
SMC4 proteins. The structural maintenance of
chromosomes (SMC) proteins are large (approximately 110
to 170 kDa), and each is arranged into five
recognizable domains. Amino-acid sequence homology of
SMC proteins between species is largely confined to the
amino- and carboxy-terminal globular domains. The
amino-terminal domain contains a 'Walker A'
nucleotide-binding domain (GxxGxGKS/T, in the
single-letter amino-acid code), which by mutational
studies has been shown to be essential in several
proteins. The carboxy-terminal domain contains a
sequence (the DA-box) that resembles a 'Walker B'
motif, and a motif with homology to the signature
sequence of the ATP-binding cassette (ABC) family of
ATPases. The sequence homology within the
carboxy-terminal domain is relatively high within the
SMC1-SMC4 group, whereas SMC5 and SMC6 show some
divergence in both of these sequences. In eukaryotic
cells, the proteins are found as heterodimers of SMC1
paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6
(formerly known as Rad18).
Length = 212
Score = 58.5 bits (142), Expect = 8e-12
Identities = 28/84 (33%), Positives = 46/84 (54%), Gaps = 2/84 (2%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSD 60
+ I ++++ FKSY + V+ PF K + +VG NGSGKSN ++ FV ++ +R
Sbjct: 1 LIITKLVLENFKSYAGEQVIGPFHKSFSAIVGPNGSGKSNVIDSMLFVFGFRASKMRQK- 59
Query: 61 SRQALLHEGTG-PRVVNAYVEIVF 83
L+H G P + + VE+ F
Sbjct: 60 KLSDLIHNSAGHPNLDSCSVEVHF 83
>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 908
Score = 57.5 bits (139), Expect = 5e-11
Identities = 25/92 (27%), Positives = 44/92 (47%), Gaps = 11/92 (11%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVL---SDESTSLR 57
M I ++ + F+S+K+ + + FD ++VG NG+GKS+ AI F L + +
Sbjct: 1 MKILRLRLKNFRSFKDIDIEKLFDSGIFLIVGPNGAGKSSILDAITFALYGKTPRLGAFS 60
Query: 58 HSDSRQALLHEGTGPRVVNAYVEIVFDNTDHR 89
D +A G + A VE+ F+ +
Sbjct: 61 LDDLIRA------GEKS--ASVELEFEVNGKK 84
>gnl|CDD|234608 PRK00064, recF, recombination protein F; Reviewed.
Length = 361
Score = 52.9 bits (128), Expect = 2e-09
Identities = 24/83 (28%), Positives = 39/83 (46%), Gaps = 11/83 (13%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDEST--SLR- 57
MY+ ++ + F++Y+E + NV+VG NG GK+N AI + + S R
Sbjct: 1 MYLTRLSLTDFRNYEELDL--ELSPGVNVLVGENGQGKTNLLEAIYLL----APGRSHRT 54
Query: 58 HSDSRQALLHEGTGPRVVNAYVE 80
D L+ G V++ VE
Sbjct: 55 ARDKE--LIRFGAEAAVIHGRVE 75
>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional.
Length = 880
Score = 48.5 bits (116), Expect = 8e-08
Identities = 21/45 (46%), Positives = 32/45 (71%), Gaps = 2/45 (4%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAI 45
M I+++ I F+S+K +VVE FD N+++G+NGSGKS+ AI
Sbjct: 1 MKIEELKIKNFRSHKS-SVVE-FDDGINLIIGQNGSGKSSILEAI 43
>gnl|CDD|224031 COG1106, COG1106, Predicted ATPases [General function prediction
only].
Length = 371
Score = 47.1 bits (112), Expect = 2e-07
Identities = 19/48 (39%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 3 IKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLS 50
IK I FKS++E +E F + N++ G NG+GKSN A+ F+
Sbjct: 2 IKSFKIKNFKSFRE-LELEDF-GKINIIYGANGAGKSNLLEALYFLKG 47
>gnl|CDD|224116 COG1195, RecF, Recombinational DNA repair ATPase (RecF pathway)
[DNA replication, recombination, and repair].
Length = 363
Score = 47.2 bits (113), Expect = 2e-07
Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQF 47
MY+ +++ F++Y E + NV+VG NG GK+N AI
Sbjct: 1 MYLLSLLLRNFRNYAELDL--DLSPGVNVLVGENGQGKTNLLEAIYL 45
>gnl|CDD|213207 cd03240, ABC_Rad50, ATP-binding cassette domain of Rad50. The
catalytic domains of Rad50 are similar to the
ATP-binding cassette of ABC transporters, but are not
associated with membrane-spanning domains. The
conserved ATP-binding motifs common to Rad50 and the
ABC transporter family include the Walker A and Walker
B motifs, the Q loop, a histidine residue in the switch
region, a D-loop, and a conserved LSGG sequence. This
conserved sequence, LSGG, is the most specific and
characteristic motif of this family and is thus known
as the ABC signature sequence.
Length = 204
Score = 45.3 bits (108), Expect = 6e-07
Identities = 22/86 (25%), Positives = 46/86 (53%), Gaps = 6/86 (6%)
Query: 3 IKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLS-DESTSLRHSDS 61
I ++ I +S+ E++ +E F ++VG+NG+GK+ A+++ L+ + + +
Sbjct: 1 IDKLSIRNIRSFHERSEIE-FFSPLTLIVGQNGAGKTTIIEALKYALTGELPPNSKGGAH 59
Query: 62 RQALLHEGTGPRVVNAYVEIVFDNTD 87
L+ EG V A V++ F+N +
Sbjct: 60 DPKLIREGE----VRAQVKLAFENAN 81
>gnl|CDD|226121 COG3593, COG3593, Predicted ATP-dependent endonuclease of the OLD
family [DNA replication, recombination, and repair].
Length = 581
Score = 44.7 bits (106), Expect = 2e-06
Identities = 17/55 (30%), Positives = 32/55 (58%), Gaps = 2/55 (3%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTS 55
M++++V I F+ ++ F++ NV++G N SGKS+ A++ +L ES
Sbjct: 1 MHLERVKIKNFRGINRLSL--EFEEGLNVLIGENNSGKSSLLDALRLLLDPESDL 53
>gnl|CDD|213209 cd03242, ABC_RecF, ATP-binding cassette domain of RecF. RecF is
a recombinational DNA repair ATPase that maintains
replication in the presence of DNA damage. When
replication is prematurely disrupted by DNA damage,
several recF pathway gene products play critical roles
processing the arrested replication fork, allowing it
to resume and complete its task. This CD represents the
nucleotide binding domain of RecF. RecF belongs to a
large superfamily of ABC transporters involved in the
transport of a wide variety of different compounds
including sugars, ions, peptides, and more complex
organic molecules. The nucleotide binding domain shows
the highest similarity between all members of the
family. ABC transporters are a subset of nucleotide
hydrolases with a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 270
Score = 42.3 bits (100), Expect = 8e-06
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 11 FKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQF 47
F++Y E + F+ V+VG N GK+N AI
Sbjct: 9 FRNYAELEL--EFEPGVTVLVGENAQGKTNLLEAISL 43
>gnl|CDD|233051 TIGR00611, recf, recF protein. All proteins in this family for
which functions are known are DNA binding proteins that
assist the filamentation of RecA onto DNA for the
initiation of recombination or recombinational 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 = 365
Score = 39.6 bits (93), Expect = 8e-05
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQF 47
MY+ ++ + F++Y + NV+VG NG GK+N AI +
Sbjct: 1 MYLSRLELTDFRNYDAVDL--ELSPGVNVIVGPNGQGKTNLLEAIYY 45
>gnl|CDD|213246 cd03279, ABC_sbcCD, ATP-binding cassette domain of sbcCD. SbcCD
and other Mre11/Rad50 (MR) complexes are implicated in
the metabolism of DNA ends. They cleave ends sealed by
hairpin structures and are thought to play a role in
removing protein bound to DNA termini.
Length = 213
Score = 38.8 bits (91), Expect = 1e-04
Identities = 22/110 (20%), Positives = 41/110 (37%), Gaps = 19/110 (17%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHN----VVVGRNGSGKSNFFFAIQFVLSDESTSL 56
M ++ + F ++E+ V++ F N ++ G G+GKS AI + L ++
Sbjct: 1 MKPLKLELKNFGPFREEQVID-FTGLDNNGLFLICGPTGAGKSTILDAITYALYGKTPRY 59
Query: 57 RHSDSRQALLHEGTGPRVVNAYVEIVFDNTD-----HRVPG-----FIRC 96
++ +++ G A V F R G F R
Sbjct: 60 GRQENLRSVFAPGEDT----AEVSFTFQLGGKKYRVERSRGLDYDQFTRI 105
>gnl|CDD|129705 TIGR00618, sbcc, exonuclease SbcC. All proteins in this family
for which functions are known are part of an
exonuclease complex with sbcD homologs. This complex is
involved in the initiation of recombination to regulate
the levels of palindromic sequences in DNA. 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 = 1042
Score = 39.2 bits (91), Expect = 1e-04
Identities = 19/98 (19%), Positives = 35/98 (35%), Gaps = 2/98 (2%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVV-GRNGSGKSNFFFAIQFVLSDESTSLRHS 59
M ++ + F SYK ++ ++ G+ G+GK+ AI + L +
Sbjct: 1 MKPLRLTLKNFGSYKGTHTIDFTALGPIFLICGKTGAGKTTLLDAITYALYGKLPRRSEV 60
Query: 60 DSRQALLHEGTGPRVVNAYVEIVFDNTDHRVPGFIRCR 97
L+ A +E +RV +RC
Sbjct: 61 IRSLNSLYAAPSEAAF-AELEFSLGTKIYRVHRTLRCT 97
>gnl|CDD|222036 pfam13304, AAA_21, AAA domain.
Length = 256
Score = 38.6 bits (89), Expect = 2e-04
Identities = 14/35 (40%), Positives = 18/35 (51%)
Query: 28 NVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSDSR 62
NV++G NGSGKSN A+ +L S L
Sbjct: 2 NVIIGPNGSGKSNLLKALALLLLLLSLGLTLDRGL 36
>gnl|CDD|205733 pfam13555, AAA_29, P-loop containing region of AAA domain.
Length = 60
Score = 35.2 bits (82), Expect = 5e-04
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 22 PFDKRHNVVVGRNGSGKSNFFFAIQFVL 49
P D + ++ G +GSGKS AIQ +L
Sbjct: 18 PIDPKGTLLTGPSGSGKSTLIDAIQTLL 45
>gnl|CDD|100796 PRK01156, PRK01156, chromosome segregation protein; Provisional.
Length = 895
Score = 37.6 bits (87), Expect = 5e-04
Identities = 19/60 (31%), Positives = 34/60 (56%), Gaps = 2/60 (3%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSD 60
M IK++ + F S+ + + FD N++ G+NG+GKS+ AI+F L + + + D
Sbjct: 1 MIIKRIRLKNFLSHDDSEIE--FDTGINIITGKNGAGKSSIVDAIRFALFTDKRTEKIED 58
>gnl|CDD|213179 cd00267, ABC_ATPase, ATP-binding cassette transporter
nucleotide-binding domain. ABC transporters are a
large family of proteins involved in the transport of a
wide variety of different compounds, like sugars, ions,
peptides, and more complex organic molecules. The
nucleotide-binding domain shows the highest similarity
between all members of the family. ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition to, the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and
GTP-binding and hydrolyzing proteins.
Length = 157
Score = 36.5 bits (85), Expect = 6e-04
Identities = 13/43 (30%), Positives = 18/43 (41%), Gaps = 5/43 (11%)
Query: 12 KSYKEQTVVEPFD-----KRHNVVVGRNGSGKSNFFFAIQFVL 49
Y +T ++ +VG NGSGKS AI +L
Sbjct: 7 FRYGGRTALDNVSLTLKAGEIVALVGPNGSGKSTLLRAIAGLL 49
>gnl|CDD|226984 COG4637, COG4637, Predicted ATPase [General function prediction
only].
Length = 373
Score = 37.1 bits (86), Expect = 7e-04
Identities = 19/73 (26%), Positives = 39/73 (53%), Gaps = 7/73 (9%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSD 60
M + + + ++S+ +E +R NV++G NG+GKSNF+ A++ + +L+ +
Sbjct: 1 MMLVSIKVKNYRSF-RSLDLEI--RRVNVIIGANGAGKSNFYDALRLLADAVRGNLQQAL 57
Query: 61 SRQ----ALLHEG 69
R+ +L G
Sbjct: 58 QREGGLNEVLTRG 70
>gnl|CDD|221957 pfam13175, AAA_15, AAA ATPase domain. This family of domains
contain a P-loop motif that is characteristic of the
AAA superfamily.
Length = 320
Score = 37.0 bits (86), Expect = 7e-04
Identities = 17/58 (29%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 3 IKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSD 60
+K++ I FKS K + ++ NV++G NGSGK+ A+ + + + SD
Sbjct: 1 LKKIKIKNFKSIKNLEEIS-LNEGINVIIGENGSGKTTILEALDNLKEKKKIYISISD 57
>gnl|CDD|221952 pfam13166, AAA_13, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins. This family includes the
PrrC protein that is thought to be the active component
of the anticodon nuclease.
Length = 713
Score = 36.9 bits (86), Expect = 9e-04
Identities = 22/88 (25%), Positives = 33/88 (37%), Gaps = 7/88 (7%)
Query: 10 GFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNF--FFAIQFVLSDESTSLRHSDSRQALLH 67
SY + K+ N++ GRNGSGK+ F L + S +
Sbjct: 1 NVASYDDWGNELDDLKKVNLIYGRNGSGKTTLSRLFR-SLELGRIHEKYSNC-SFEWKSD 58
Query: 68 EGTGPRVVN-AYVEIVFDNTDHRVPGFI 94
+ RV N +VE FD + + G
Sbjct: 59 DPLKVRVYNRDFVEENFDEGE--IKGVF 84
>gnl|CDD|213243 cd03276, ABC_SMC6_euk, ATP-binding cassette domain of eukaryotic
SM6 proteins. The structural maintenance of
chromosomes (SMC) proteins are large (approximately 110
to 170 kDa), and each is arranged into five
recognizable domains. Amino-acid sequence homology of
SMC proteins between species is largely confined to the
amino- and carboxy-terminal globular domains. The
amino-terminal domain contains a 'Walker A'
nucleotide-binding domain (GxxGxGKS/T, in the
single-letter amino-acid code), which by mutational
studies has been shown to be essential in several
proteins. The carboxy-terminal domain contains a
sequence (the DA-box) that resembles a 'Walker B'
motif, and a motif with homology to the signature
sequence of the ATP-binding cassette (ABC) family of
ATPases. The sequence homology within the
carboxy-terminal domain is relatively high within the
SMC1-SMC4 group, whereas SMC5 and SMC6 show some
divergence in both of these sequences. In eukaryotic
cells, the proteins are found as heterodimers of SMC1
paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6
(formerly known as Rad18).
Length = 198
Score = 34.1 bits (79), Expect = 0.006
Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 4/63 (6%)
Query: 23 FDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSDSRQALLHEGTGPRVVNAYVEIV 82
F R N +VG NGSGKS A+ L +++ S + L+ +G +A + +
Sbjct: 19 FGPRVNFIVGNNGSGKSAILTALTIGLGGKASDTNRGSSLKDLIKDGE----SSAKITVT 74
Query: 83 FDN 85
N
Sbjct: 75 LKN 77
>gnl|CDD|213244 cd03277, ABC_SMC5_euk, ATP-binding cassette domain of eukaryotic
SMC5 proteins. The structural maintenance of
chromosomes (SMC) proteins are large (approximately 110
to 170 kDa), and each is arranged into five
recognizable domains. Amino-acid sequence homology of
SMC proteins between species is largely confined to the
amino- and carboxy-terminal globular domains. The
amino-terminal domain contains a 'Walker A'
nucleotide-binding domain (GxxGxGKS/T, in the
single-letter amino-acid code), which by mutational
studies has been shown to be essential in several
proteins. The carboxy-terminal domain contains a
sequence (the DA-box) that resembles a 'Walker B'
motif, and a motif with homology to the signature
sequence of the ATP-binding cassette (ABC) family of
ATPases. The sequence homology within the
carboxy-terminal domain is relatively high within the
SMC1-SMC4 group, whereas SMC5 and SMC6 show some
divergence in both of these sequences. In eukaryotic
cells, the proteins are found as heterodimers of SMC1
paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6
(formerly known as Rad18).
Length = 213
Score = 33.3 bits (77), Expect = 0.010
Identities = 20/87 (22%), Positives = 35/87 (40%), Gaps = 7/87 (8%)
Query: 3 IKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSDSR 62
I ++ + F +Y E N+++G NGSGKS+ AI L + L +
Sbjct: 3 IVRIKLENFVTYDETEFR--PGPSLNMIIGPNGSGKSSIVCAICLGLGGKPKLLGRAKKV 60
Query: 63 QALLHEGTGPRVVNAYVEI-VFDNTDH 88
+ G +EI ++ N +
Sbjct: 61 GEFVKRGCD----EGTIEIELYGNPGN 83
>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional.
Length = 880
Score = 33.1 bits (76), Expect = 0.019
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 6/49 (12%)
Query: 1 MYIKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNF----FFAI 45
M +V + FK Y + + + V+ G NGSGKS+ FFA+
Sbjct: 1 MRFDRVRLENFKCYADADL--RLEDGVTVIHGVNGSGKSSLLEACFFAL 47
>gnl|CDD|234141 TIGR03185, DNA_S_dndD, DNA sulfur modification protein DndD.
This model describes the DndB protein encoded by an
operon associated with a sulfur-containing modification
to DNA. The operon is sporadically distributed in
bacteria, much like some restriction enzyme operons.
DndD is described as a putative ATPase. The small
number of examples known so far include species from
among the Firmicutes, Actinomycetes, Proteobacteria,
and Cyanobacteria [DNA metabolism,
Restriction/modification].
Length = 650
Score = 32.7 bits (75), Expect = 0.020
Identities = 20/87 (22%), Positives = 30/87 (34%), Gaps = 17/87 (19%)
Query: 1 MYIKQVIIHGFKSYKEQTVV--EPFDKRHNVVV--GRNGSGKSNFFFAIQFVL------- 49
M I Q+ + F Y+ + P +++ G NG+GK+ AIQ L
Sbjct: 1 MIILQLTLENFGPYRGRQTFDLSP-SSPKPIILIGGLNGAGKTTLLDAIQLALYGKRALC 59
Query: 50 -----SDESTSLRHSDSRQALLHEGTG 71
LR +RQA
Sbjct: 60 SGRGNKSYEQYLRGLINRQAGKTNPAS 86
>gnl|CDD|226459 COG3950, COG3950, Predicted ATP-binding protein involved in
virulence [General function prediction only].
Length = 440
Score = 32.6 bits (74), Expect = 0.022
Identities = 18/68 (26%), Positives = 26/68 (38%), Gaps = 11/68 (16%)
Query: 29 VVVGRNGSGKS----------NFFFAIQFVLSDESTSLRHSDSRQALLHEGTGPRVVNAY 78
++VG NGSGK+ N F L +S + D + + + P V A
Sbjct: 28 IIVGPNGSGKTTVLDAIRNALNKFIDFFIYLRFKSLKIELDDI-ELCIMSQSNPTVAVAV 86
Query: 79 VEIVFDNT 86
VE D
Sbjct: 87 VEYENDKK 94
>gnl|CDD|226359 COG3839, MalK, ABC-type sugar transport systems, ATPase
components [Carbohydrate transport and metabolism].
Length = 338
Score = 31.8 bits (73), Expect = 0.037
Identities = 10/33 (30%), Positives = 16/33 (48%), Gaps = 5/33 (15%)
Query: 12 KSYKEQTVVEPF-----DKRHNVVVGRNGSGKS 39
KS+ V++ D V++G +G GKS
Sbjct: 11 KSFGSFEVLKDVNLDIEDGEFVVLLGPSGCGKS 43
>gnl|CDD|234748 PRK00402, PRK00402, 3-isopropylmalate dehydratase large subunit;
Reviewed.
Length = 418
Score = 31.3 bits (72), Expect = 0.062
Identities = 12/39 (30%), Positives = 18/39 (46%), Gaps = 10/39 (25%)
Query: 63 QALLHEGTGPRVVNAYVEI----VFDNT------DHRVP 91
+ H+ TGP + + +I VFD + DH VP
Sbjct: 30 LVMAHDITGPLAIKEFEKIGGDKVFDPSKIVIVFDHFVP 68
>gnl|CDD|213188 cd03221, ABCF_EF-3, ATP-binding cassette domain of elongation
factor 3, subfamily F. Elongation factor 3 (EF-3) is a
cytosolic protein required by fungal ribosomes for in
vitro protein synthesis and for in vivo growth. EF-3
stimulates the binding of the EF-1: GTP: aa-tRNA
ternary complex to the ribosomal A site by facilitated
release of the deacylated tRNA from the E site. The
reaction requires ATP hydrolysis. EF-3 contains two ATP
nucleotide binding sequence (NBS) motifs. NBSI is
sufficient for the intrinsic ATPase activity. NBSII is
essential for the ribosome-stimulated functions.
Length = 144
Score = 30.1 bits (69), Expect = 0.11
Identities = 12/54 (22%), Positives = 21/54 (38%), Gaps = 5/54 (9%)
Query: 12 KSYKEQTVVEPFD-----KRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSD 60
K+Y + +++ +VGRNG+GKS I L + +
Sbjct: 8 KTYGGKLLLKDISLTINPGDRIGLVGRNGAGKSTLLKLIAGELEPDEGIVTWGS 61
>gnl|CDD|182852 PRK10938, PRK10938, putative molybdenum transport ATP-binding
protein ModF; Provisional.
Length = 490
Score = 30.0 bits (68), Expect = 0.19
Identities = 13/38 (34%), Positives = 15/38 (39%)
Query: 29 VVVGRNGSGKSNFFFAIQFVLSDESTSLRHSDSRQALL 66
VG NGSGKS A+ L S + S L
Sbjct: 33 AFVGANGSGKSALARALAGELPLLSGERQSQFSHITRL 70
>gnl|CDD|227274 COG4938, COG4938, Uncharacterized conserved protein [Function
unknown].
Length = 374
Score = 29.9 bits (67), Expect = 0.23
Identities = 14/54 (25%), Positives = 23/54 (42%), Gaps = 3/54 (5%)
Query: 3 IKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSL 56
I + + FK Y ++ K V +G N SGKS ++ + S + S
Sbjct: 2 ILSLSLKNFKPYINGKIIL---KPLTVFIGPNSSGKSTTIQSLYLIYSGLTRSY 52
>gnl|CDD|213197 cd03230, ABC_DR_subfamily_A, ATP-binding cassette domain of the
drug resistance transporter and related proteins,
subfamily A. This family of ATP-binding proteins
belongs to a multi-subunit transporter involved in drug
resistance (BcrA and DrrA), nodulation, lipid
transport, and lantibiotic immunity. In bacteria and
archaea, these transporters usually include an
ATP-binding protein and one or two integral membrane
proteins. Eukaryotic systems of the ABCA subfamily
display ABC domains that are quite similar to this
family. The ATP-binding domain shows the highest
similarity between all members of the ABC transporter
family. ABC transporters are a subset of nucleotide
hydrolases that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 173
Score = 29.3 bits (67), Expect = 0.26
Identities = 8/38 (21%), Positives = 20/38 (52%), Gaps = 5/38 (13%)
Query: 7 IIHGFKSYKEQTVVEPFD---KRHNVV--VGRNGSGKS 39
+ + K Y ++T ++ ++ + +G NG+GK+
Sbjct: 3 VRNLSKRYGKKTALDDISLTVEKGEIYGLLGPNGAGKT 40
>gnl|CDD|184491 PRK14079, recF, recombination protein F; Provisional.
Length = 349
Score = 29.4 bits (66), Expect = 0.30
Identities = 20/51 (39%), Positives = 27/51 (52%), Gaps = 4/51 (7%)
Query: 30 VVGRNGSGKSNFFFAIQFVLSDESTSLRHSDSRQALLHEGTGPRVVNAYVE 80
VVG N +GK+N AI L+ E + R +D L+ G G V+A VE
Sbjct: 28 VVGENAAGKTNLLEAIYLALTGELPNGRLAD----LVRFGEGEAWVHAEVE 74
>gnl|CDD|222878 PHA02562, 46, endonuclease subunit; Provisional.
Length = 562
Score = 29.2 bits (66), Expect = 0.35
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 28 NVVVGRNGSGKSNFFFAIQFVL 49
++ G+NG+GKS A+ F L
Sbjct: 30 TLITGKNGAGKSTMLEALTFAL 51
>gnl|CDD|172200 PRK13652, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 277
Score = 29.0 bits (65), Expect = 0.36
Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 8/63 (12%)
Query: 30 VVGRNGSGKSNFFFAIQFVLSDESTS--LRHSDSRQALLHEGTGPRVVNAYVEIVFDNTD 87
V+G NG+GKS F +L S S +R + + E V +V +VF N D
Sbjct: 35 VIGPNGAGKSTLFRHFNGILKPTSGSVLIRGEPITKENIRE------VRKFVGLVFQNPD 88
Query: 88 HRV 90
++
Sbjct: 89 DQI 91
>gnl|CDD|223562 COG0488, Uup, ATPase components of ABC transporters with
duplicated ATPase domains [General function prediction
only].
Length = 530
Score = 29.1 bits (66), Expect = 0.42
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 30 VVGRNGSGKSNFF 42
+VGRNG+GKS
Sbjct: 34 LVGRNGAGKSTLL 46
Score = 26.4 bits (59), Expect = 3.2
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 29 VVVGRNGSGKSNFFFAIQFVLSDES 53
+VG NG+GKS + L S
Sbjct: 352 AIVGPNGAGKSTLLKLLAGELGPLS 376
>gnl|CDD|213235 cd03268, ABC_BcrA_bacitracin_resist, ATP-binding cassette domain
of the bacitracin-resistance transporter. The BcrA
subfamily represents ABC transporters involved in
peptide antibiotic resistance. Bacitracin is a
dodecapeptide antibiotic produced by B. licheniformis
and B. subtilis. The synthesis of bacitracin is
non-ribosomally catalyzed by a multi-enzyme complex
BcrABC. Bacitracin has potent antibiotic activity
against gram-positive bacteria. The inhibition of
peptidoglycan biosynthesis is the best characterized
bacterial effect of bacitracin. The bacitracin
resistance of B. licheniformis is mediated by the ABC
transporter Bcr which is composed of two identical BcrA
ATP-binding subunits and one each of the integral
membrane proteins, BcrB and BcrC. B. subtilis cells
carrying bcr genes on high-copy number plasmids develop
collateral detergent sensitivity, a similar phenomenon
in human cells with overexpressed multi-drug resistance
P-glycoprotein.
Length = 208
Score = 28.7 bits (65), Expect = 0.45
Identities = 9/33 (27%), Positives = 19/33 (57%), Gaps = 5/33 (15%)
Query: 12 KSYKEQTVVEPFD---KRHNVV--VGRNGSGKS 39
K+Y ++ V++ K+ + +G NG+GK+
Sbjct: 8 KTYGKKRVLDDISLHVKKGEIYGFLGPNGAGKT 40
>gnl|CDD|216796 pfam01935, DUF87, Domain of unknown function DUF87. The function
of this prokaryotic domain is unknown. It contains
several conserved aspartates and histidines that could
be metal ligands.
Length = 218
Score = 28.8 bits (65), Expect = 0.45
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 26 RHNVVVGRNGSGKSNF 41
RH ++G GSGKSN
Sbjct: 24 RHFAILGSTGSGKSNT 39
>gnl|CDD|223487 COG0410, LivF, ABC-type branched-chain amino acid transport
systems, ATPase component [Amino acid transport and
metabolism].
Length = 237
Score = 28.2 bits (64), Expect = 0.61
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 29 VVVGRNGSGKSNFFFAI 45
++GRNG+GK+ I
Sbjct: 33 ALLGRNGAGKTTLLKTI 49
>gnl|CDD|234401 TIGR03925, T7SS_EccC_b, type VII secretion protein EccCb. This
model represents the C-terminal domain or EccCb subunit
of the type VII secretion protein EccC as found in the
Actinobacteria. Type VII secretion is defined more
broadly as including secretion systems for ESAT-6-like
proteins in the Firmicutes as well as in the
Actinobacteria, but this family does not show close
homologs in the Firmicutes [Protein fate, Protein and
peptide secretion and trafficking].
Length = 566
Score = 28.4 bits (64), Expect = 0.70
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 26 RHNVVVGRNGSGKSNFFFAI 45
H +V G + SGK+ AI
Sbjct: 364 PHLLVFGDSESGKTTLLRAI 383
>gnl|CDD|237421 PRK13539, PRK13539, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 207
Score = 28.3 bits (64), Expect = 0.73
Identities = 7/11 (63%), Positives = 9/11 (81%)
Query: 29 VVVGRNGSGKS 39
V+ G NGSGK+
Sbjct: 32 VLTGPNGSGKT 42
>gnl|CDD|240291 PTZ00146, PTZ00146, fibrillarin; Provisional.
Length = 293
Score = 28.2 bits (63), Expect = 0.75
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 9 HGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSN 40
G K KEQ +EPF++ H VV+G K
Sbjct: 262 EGLKP-KEQLTLEPFERDHAVVIGVYRPVKKK 292
>gnl|CDD|219152 pfam06728, PIG-U, GPI transamidase subunit PIG-U. Many eukaryotic
proteins are anchored to the cell surface via
glycosylphosphatidylinositol (GPI), which is
posttranslationally attached to the carboxyl-terminus by
GPI transamidase. The mammalian GPI transamidase is a
complex of at least four subunits, GPI8, GAA1, PIG-S,
and PIG-T. PIG-U is thought to represent a fifth subunit
in this complex and may be involved in the recognition
of either the GPI attachment signal or the lipid portion
of GPI.
Length = 373
Score = 28.4 bits (64), Expect = 0.77
Identities = 10/14 (71%), Positives = 11/14 (78%)
Query: 35 GSGKSNFFFAIQFV 48
GSG +NFFFAI V
Sbjct: 359 GSGNANFFFAITLV 372
>gnl|CDD|224044 COG1119, ModF, ABC-type molybdenum transport system, ATPase
component/photorepair protein PhrA [Inorganic ion
transport and metabolism].
Length = 257
Score = 28.0 bits (63), Expect = 0.78
Identities = 7/36 (19%), Positives = 14/36 (38%), Gaps = 5/36 (13%)
Query: 9 HGFKSYKEQTVVEPFD-----KRHNVVVGRNGSGKS 39
+ + ++ H +VG NG+GK+
Sbjct: 36 NVSVRRNGKKILGDLSWQVNPGEHWAIVGPNGAGKT 71
>gnl|CDD|213184 cd03217, ABC_FeS_Assembly, ABC-type transport system involved in
Fe-S cluster assembly, ATPase component. Biosynthesis
of iron-sulfur clusters (Fe-S) depends on multi-protein
systems. The SUF system of E. coli and Erwinia
chrysanthemi is important for Fe-S biogenesis under
stressful conditions. The SUF system is made of six
proteins: SufC is an atypical cytoplasmic ABC-ATPase,
which forms a complex with SufB and SufD; SufA plays
the role of a scaffold protein for assembly of
iron-sulfur clusters and delivery to target proteins;
SufS is a cysteine desulfurase which mobilizes the
sulfur atom from cysteine and provides it to the
cluster; SufE has no associated function yet.
Length = 200
Score = 27.9 bits (63), Expect = 0.79
Identities = 8/17 (47%), Positives = 10/17 (58%)
Query: 29 VVVGRNGSGKSNFFFAI 45
++G NGSGKS I
Sbjct: 30 ALMGPNGSGKSTLAKTI 46
>gnl|CDD|236042 PRK07525, PRK07525, sulfoacetaldehyde acetyltransferase;
Validated.
Length = 588
Score = 28.0 bits (63), Expect = 0.91
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 26 RHNVVVGRNGSGKSNFFFAI 45
R +V+G+NG G +NF A+
Sbjct: 68 RMGMVIGQNGPGITNFVTAV 87
>gnl|CDD|213226 cd03259, ABC_Carb_Solutes_like, ATP-binding cassette domain of
the carbohydrate and solute transporters-like. This
family is comprised of proteins involved in the
transport of apparently unrelated solutes and proteins
specific for di- and oligosaccharides and polyols. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds,
like sugars, ions, peptides and more complex organic
molecules. The nucleotide-binding domain shows the
highest similarity between all members of the family.
ABC transporters are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 213
Score = 27.9 bits (63), Expect = 0.96
Identities = 7/40 (17%), Positives = 16/40 (40%), Gaps = 6/40 (15%)
Query: 6 VIIHGF-KSYKEQTVVEPFD-----KRHNVVVGRNGSGKS 39
+ + G K+Y ++ ++G +G GK+
Sbjct: 1 LELKGLSKTYGSVRALDDLSLTVEPGEFLALLGPSGCGKT 40
>gnl|CDD|153133 cd01583, IPMI, 3-isopropylmalate dehydratase catalyzes the
isomerization between 2-isopropylmalate and
3-isopropylmalate. Aconatase-like catalytic domain of
3-isopropylmalate dehydratase and related
uncharacterized proteins. 3-isopropylmalate dehydratase
catalyzes the isomerization between 2-isopropylmalate
and 3-isopropylmalate, via the formation of
2-isopropylmaleate 3-isopropylmalate. IPMI is involved
in fungal and bacterial leucine biosynthesis and is
also found in eukaryotes.
Length = 382
Score = 27.9 bits (63), Expect = 1.0
Identities = 12/38 (31%), Positives = 16/38 (42%), Gaps = 10/38 (26%)
Query: 64 ALLHEGTGPRVVN----AYVEIVFDN------TDHRVP 91
L+H+ T P+ A E V+D DH VP
Sbjct: 2 HLVHDVTSPQAFEGLREAGREKVWDPEKIVAVFDHNVP 39
>gnl|CDD|213191 cd03224, ABC_TM1139_LivF_branched, ATP-binding cassette domain of
branched-chain amino acid transporter. LivF (TM1139)
is part of the LIV-I bacterial ABC-type two-component
transport system that imports neutral, branched-chain
amino acids. The E. coli branched-chain amino acid
transporter comprises a heterodimer of ABC transporters
(LivF and LivG), a heterodimer of six-helix TM domains
(LivM and LivH), and one of two alternative soluble
periplasmic substrate binding proteins (LivK or LivJ).
ABC transporters are a large family of proteins
involved in the transport of a wide variety of
different compounds, like sugars, ions, peptides, and
more complex organic molecules.
Length = 222
Score = 27.4 bits (62), Expect = 1.3
Identities = 7/16 (43%), Positives = 11/16 (68%)
Query: 30 VVGRNGSGKSNFFFAI 45
++GRNG+GK+ I
Sbjct: 31 LLGRNGAGKTTLLKTI 46
>gnl|CDD|213217 cd03250, ABCC_MRP_domain1, ATP-binding cassette domain 1 of
multidrug resistance-associated protein, subfamily C.
This subfamily is also known as MRP (multidrug
resistance-associated protein). Some of the MRP members
have five additional transmembrane segments in their
N-terminus, but the function of these additional
membrane-spanning domains is not clear. The MRP was
found in the multidrug-resisting lung cancer cell in
which p-glycoprotein was not overexpressed. MRP exports
glutathione by drug stimulation, as well as, certain
substrates in conjugated forms with anions, such as
glutathione, glucuronate, and sulfate.
Length = 204
Score = 27.4 bits (62), Expect = 1.3
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 28 NVVVGRNGSGKSNFFFAI 45
+VG GSGKS+ A+
Sbjct: 34 VAIVGPVGSGKSSLLSAL 51
>gnl|CDD|227321 COG4988, CydD, ABC-type transport system involved in cytochrome bd
biosynthesis, ATPase and permease components [Energy
production and conversion / Posttranslational
modification, protein turnover, chaperones].
Length = 559
Score = 27.6 bits (62), Expect = 1.5
Identities = 7/41 (17%), Positives = 16/41 (39%), Gaps = 5/41 (12%)
Query: 10 GFKSYKEQTVVEPFD-----KRHNVVVGRNGSGKSNFFFAI 45
F+ + + + + +VG +G+GKS +
Sbjct: 327 SFRYPDGKPALSDLNLTIKAGQLTALVGASGAGKSTLLNLL 367
>gnl|CDD|223994 COG1067, LonB, Predicted ATP-dependent protease
[Posttranslational modification, protein turnover,
chaperones].
Length = 647
Score = 27.3 bits (61), Expect = 1.5
Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 3 IKQVIIHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDE 52
I QVI G F +RH +++G G GKS A+ F+L E
Sbjct: 26 IDQVI--GQDEAVPIVKSAAFQRRHILLIGEPGVGKSMLAQAMSFLLPLE 73
>gnl|CDD|233994 TIGR02746, TraC-F-type, type-IV secretion system protein TraC. The
protein family described here is common among the F, P
and I-like type IV secretion systems. Gene symbols
include TraC (F-type), TrbE/VirB4 (P-type) and TraU
(I-type). The protein conyains the Walker A and B motifs
and so is a putative nucleotide triphosphatase.
Length = 797
Score = 27.3 bits (61), Expect = 1.5
Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 7/45 (15%)
Query: 11 FKSYKEQ-TVVEPFDKRHN----VVVGRNGSGKSNFFFAIQFVLS 50
+ + Q + +PFD VVG +G+GKS FF + ++
Sbjct: 411 LPTRRGQLSAFDPFDSDSTNYNIAVVGGSGAGKS--FFMQELIVD 453
>gnl|CDD|183063 PRK11264, PRK11264, putative amino-acid ABC transporter
ATP-binding protein YecC; Provisional.
Length = 250
Score = 27.4 bits (61), Expect = 1.6
Identities = 20/83 (24%), Positives = 36/83 (43%), Gaps = 9/83 (10%)
Query: 12 KSYKEQTVVEPFDKRHN-----VVVGRNGSGKSNFFFAIQFVLSDESTSLR----HSDSR 62
K + QTV+ D ++G +GSGK+ I + E+ ++R D+
Sbjct: 11 KKFHGQTVLHGIDLEVKPGEVVAIIGPSGSGKTTLLRCINLLEQPEAGTIRVGDITIDTA 70
Query: 63 QALLHEGTGPRVVNAYVEIVFDN 85
++L + R + +V VF N
Sbjct: 71 RSLSQQKGLIRQLRQHVGFVFQN 93
>gnl|CDD|224026 COG1101, PhnK, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 263
Score = 27.3 bits (61), Expect = 1.6
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 29 VVVGRNGSGKSNFFFAI 45
V+G NG+GKS AI
Sbjct: 36 TVIGSNGAGKSTLLNAI 52
>gnl|CDD|237612 PRK14108, PRK14108, bifunctional glutamine-synthetase
adenylyltransferase/deadenyltransferase; Provisional.
Length = 986
Score = 27.3 bits (61), Expect = 1.6
Identities = 14/39 (35%), Positives = 18/39 (46%), Gaps = 5/39 (12%)
Query: 8 IHGFKSYKEQTVVEPFDKRHNVVVGRNGSGKSNFFFAIQ 46
IH K + E V + HNV +GR G + FF Q
Sbjct: 332 IHAHKGHGEIAV-----EGHNVKLGRGGIREIEFFVQTQ 365
>gnl|CDD|213192 cd03225, ABC_cobalt_CbiO_domain1, First domain of the ATP-binding
cassette component of cobalt transport system. Domain
I of the ABC component of a cobalt transport family
found in bacteria, archaea, and eukaryota. The
transition metal cobalt is an essential component of
many enzymes and must be transported into cells in
appropriate amounts when needed. This ABC transport
system of the CbiMNQO family is involved in cobalt
transport in association with the cobalamin (vitamin
B12) biosynthetic pathways. Most of cobalt (Cbi)
transport systems possess a separate CbiN component,
the cobalt-binding periplasmic protein, and they are
encoded by the conserved gene cluster cbiMNQO. Both the
CbiM and CbiQ proteins are integral cytoplasmic
membrane proteins, and the CbiO protein has the linker
peptide and the Walker A and B motifs commonly found in
the ATPase components of the ABC-type transport
systems.
Length = 211
Score = 27.0 bits (61), Expect = 1.8
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 29 VVVGRNGSGKSNFF 42
++VG NGSGKS
Sbjct: 31 LIVGPNGSGKSTLL 44
>gnl|CDD|237453 PRK13633, PRK13633, cobalt transporter ATP-binding subunit;
Provisional.
Length = 280
Score = 27.0 bits (60), Expect = 1.8
Identities = 9/11 (81%), Positives = 11/11 (100%)
Query: 29 VVVGRNGSGKS 39
V++GRNGSGKS
Sbjct: 40 VILGRNGSGKS 50
>gnl|CDD|226617 COG4133, CcmA, ABC-type transport system involved in cytochrome c
biogenesis, ATPase component [Posttranslational
modification, protein turnover, chaperones].
Length = 209
Score = 26.9 bits (60), Expect = 1.9
Identities = 5/11 (45%), Positives = 8/11 (72%)
Query: 29 VVVGRNGSGKS 39
+ G NG+GK+
Sbjct: 32 QITGPNGAGKT 42
>gnl|CDD|132497 TIGR03457, sulphoacet_xsc, sulfoacetaldehyde acetyltransferase.
Members of this protein family are sulfoacetaldehyde
acetyltransferase, an enzyme of taurine utilization.
Taurine, or 2-aminoethanesulfonate, can be used by
bacteria as a source of carbon, nitrogen, and sulfur
[Central intermediary metabolism, Other].
Length = 579
Score = 27.1 bits (60), Expect = 1.9
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 26 RHNVVVGRNGSGKSNFFFAI 45
R ++V+G+NG G +N AI
Sbjct: 64 RMSMVIGQNGPGVTNCVTAI 83
>gnl|CDD|227250 COG4913, COG4913, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 1104
Score = 27.3 bits (60), Expect = 1.9
Identities = 26/87 (29%), Positives = 38/87 (43%), Gaps = 10/87 (11%)
Query: 18 TVVEPFDKRHNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSDSRQALLHEGTGPRVVNA 77
TV P + +V G +GSGKS AI VL + LR + + QA T R +
Sbjct: 30 TVDIPVTREGILVTGGSGSGKSTLIDAITAVLLPQG-KLRFNSAAQA----NTPRRSLVT 84
Query: 78 YVEIVF-----DNTDHRVPGFIRCRST 99
Y+ + D V ++R R+T
Sbjct: 85 YIRGAWRAQEDPLQDQIVSTYLRPRAT 111
>gnl|CDD|201699 pfam01269, Fibrillarin, Fibrillarin.
Length = 229
Score = 26.8 bits (60), Expect = 2.0
Identities = 12/25 (48%), Positives = 18/25 (72%), Gaps = 1/25 (4%)
Query: 9 HGFKSYKEQTVVEPFDKRHNVVVGR 33
GFK KEQ +EP+++ H +VVG+
Sbjct: 203 EGFKP-KEQVTLEPYERDHAMVVGK 226
>gnl|CDD|223543 COG0467, RAD55, RecA-superfamily ATPases implicated in signal
transduction [Signal transduction mechanisms].
Length = 260
Score = 27.0 bits (60), Expect = 2.2
Identities = 9/28 (32%), Positives = 15/28 (53%), Gaps = 3/28 (10%)
Query: 23 FDKRHNV-VVGRNGSGKSNFFFAIQFVL 49
+ V + G G+GK+ FA+QF+
Sbjct: 20 LPRGSVVLITGPPGTGKT--IFALQFLY 45
>gnl|CDD|213269 cd03369, ABCC_NFT1, ATP-binding cassette domain 2 of NFT1,
subfamily C. Domain 2 of NFT1 (New full-length
MRP-type transporter 1). NFT1 belongs to the MRP
(multidrug resistance-associated protein) family of ABC
transporters. Some of the MRP members have five
additional transmembrane segments in their N-terminus,
but the function of these additional membrane-spanning
domains is not clear. The MRP was found in the
multidrug-resisting lung cancer cell in which
p-glycoprotein was not overexpressed. MRP exports
glutathione by drug stimulation, as well as, certain
substrates in conjugated forms with anions such as
glutathione, glucuronate, and sulfate.
Length = 207
Score = 26.6 bits (59), Expect = 2.2
Identities = 9/25 (36%), Positives = 13/25 (52%), Gaps = 1/25 (4%)
Query: 30 VVGRNGSGKSNFFFAIQFVLSDEST 54
+VGR G+GKS A+ F +
Sbjct: 39 IVGRTGAGKSTLILAL-FRFLEAEE 62
>gnl|CDD|215558 PLN03073, PLN03073, ABC transporter F family; Provisional.
Length = 718
Score = 27.1 bits (60), Expect = 2.2
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 26 RHNVVVGRNGSGKSNF 41
RH +VGRNG+GK+ F
Sbjct: 204 RHYGLVGRNGTGKTTF 219
>gnl|CDD|216584 pfam01580, FtsK_SpoIIIE, FtsK/SpoIIIE family. FtsK has extensive
sequence similarity to wide variety of proteins from
prokaryotes and plasmids, termed the FtsK/SpoIIIE
family. This domain contains a putative ATP binding
P-loop motif. It is found in the FtsK cell division
protein from E. coli and the stage III sporulation
protein E SpoIIIE, which has roles in regulation of
prespore specific gene expression in B. subtilis. A
mutation in FtsK causes a temperature sensitive block
in cell division and it is involved in peptidoglycan
synthesis or modification. The SpoIIIE protein is
implicated in intercellular chromosomal DNA transfer.
Length = 201
Score = 26.6 bits (59), Expect = 2.3
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 27 HNVVVGRNGSGKSNF 41
H ++ G GSGKS F
Sbjct: 40 HLLIAGATGSGKSTF 54
>gnl|CDD|213229 cd03262, ABC_HisP_GlnQ, ATP-binding cassette domain of the
histidine and glutamine transporters. HisP and GlnQ
are the ATP-binding components of the bacterial
periplasmic histidine and glutamine permeases,
respectively. Histidine permease is a multi-subunit
complex containing the HisQ and HisM integral membrane
subunits and two copies of HisP. HisP has properties
intermediate between those of integral and peripheral
membrane proteins and is accessible from both sides of
the membrane, presumably by its interaction with HisQ
and HisM. The two HisP subunits form a homodimer within
the complex. The domain structure of the amino acid
uptake systems is typical for prokaryotic extracellular
solute binding protein-dependent uptake systems. All of
the amino acid uptake systems also have at least one,
and in a few cases, two extracellular solute binding
proteins located in the periplasm of Gram-negative
bacteria, or attached to the cell membrane of
Gram-positive bacteria. The best-studied member of the
PAAT (polar amino acid transport) family is the HisJQMP
system of S. typhimurium, where HisJ is the
extracellular solute binding proteins and HisP is the
ABC protein.
Length = 213
Score = 26.7 bits (60), Expect = 2.3
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 5/35 (14%)
Query: 12 KSYKEQTVVEPFD---KRHNVVV--GRNGSGKSNF 41
KS+ + V++ D K+ VVV G +GSGKS
Sbjct: 8 KSFGDFHVLKGIDLTVKKGEVVVIIGPSGSGKSTL 42
>gnl|CDD|223571 COG0497, RecN, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 557
Score = 26.8 bits (60), Expect = 2.8
Identities = 18/75 (24%), Positives = 31/75 (41%), Gaps = 16/75 (21%)
Query: 23 FDKRHNVVVGRNGSGKSNFFFAIQFVLSD--ESTSLRHSDSRQALLHEGTGPRVVNAYVE 80
F+K V+ G G+GKS A+ +L +++ +RH R A VE
Sbjct: 20 FEKGLTVLTGETGAGKSIIIDALGLLLGGRADASLVRHGAKR--------------AEVE 65
Query: 81 IVFDNTDHRVPGFIR 95
+FD + ++
Sbjct: 66 AIFDLDNPPARAWLE 80
>gnl|CDD|213211 cd03244, ABCC_MRP_domain2, ATP-binding cassette domain 2 of
multidrug resistance-associated protein. The ABC
subfamily C is also known as MRP (multidrug
resistance-associated protein). Some of the MRP members
have five additional transmembrane segments in their
N-terminus, but the function of these additional
membrane-spanning domains is not clear. The MRP was
found in the multidrug-resistance lung cancer cell in
which p-glycoprotein was not overexpressed. MRP exports
glutathione by drug stimulation, as well as, certain
substrates in conjugated forms with anions, such as
glutathione, glucuronate, and sulfate.
Length = 221
Score = 26.3 bits (59), Expect = 3.2
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 30 VVGRNGSGKSNFFFAI 45
+VGR GSGKS+ A+
Sbjct: 35 IVGRTGSGKSSLLLAL 50
>gnl|CDD|225183 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain
an N-terminal double-glycine peptidase domain [Defense
mechanisms].
Length = 709
Score = 26.4 bits (59), Expect = 3.2
Identities = 8/11 (72%), Positives = 10/11 (90%)
Query: 29 VVVGRNGSGKS 39
+VGR+GSGKS
Sbjct: 503 AIVGRSGSGKS 513
>gnl|CDD|227320 COG4987, CydC, ABC-type transport system involved in cytochrome bd
biosynthesis, fused ATPase and permease components
[Energy production and conversion / Posttranslational
modification, protein turnover, chaperones].
Length = 573
Score = 26.5 bits (59), Expect = 3.2
Identities = 11/47 (23%), Positives = 20/47 (42%)
Query: 30 VVGRNGSGKSNFFFAIQFVLSDESTSLRHSDSRQALLHEGTGPRVVN 76
++GR+GSGKS + + S+ + A L E ++
Sbjct: 369 ILGRSGSGKSTLLQLLAGAWDPQQGSITLNGVEIASLDEQALRETIS 415
>gnl|CDD|185016 PRK15056, PRK15056, manganese/iron transporter ATP-binding
protein; Provisional.
Length = 272
Score = 26.4 bits (58), Expect = 3.6
Identities = 18/38 (47%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 30 VVGRNGSGKSNFFFAIQ-FV-LSDESTSLRHSDSRQAL 65
+VG NGSGKS F A+ FV L+ S+ +RQAL
Sbjct: 38 LVGVNGSGKSTLFKALMGFVRLASGKISILGQPTRQAL 75
>gnl|CDD|183055 PRK11247, ssuB, aliphatic sulfonates transport ATP-binding
subunit; Provisional.
Length = 257
Score = 26.2 bits (58), Expect = 3.8
Identities = 14/33 (42%), Positives = 17/33 (51%), Gaps = 5/33 (15%)
Query: 12 KSYKEQTVVEPFDKR-----HNVVVGRNGSGKS 39
K Y E+TV+ D VVGR+G GKS
Sbjct: 20 KRYGERTVLNQLDLHIPAGQFVAVVGRSGCGKS 52
>gnl|CDD|224047 COG1122, CbiO, ABC-type cobalt transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 235
Score = 26.1 bits (58), Expect = 4.1
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 27 HNVVVGRNGSGKS 39
+++G NGSGKS
Sbjct: 32 RVLLIGPNGSGKS 44
>gnl|CDD|223143 COG0065, LeuC, 3-isopropylmalate dehydratase large subunit [Amino
acid transport and metabolism].
Length = 423
Score = 26.0 bits (58), Expect = 4.1
Identities = 11/38 (28%), Positives = 14/38 (36%), Gaps = 9/38 (23%)
Query: 63 QALLHEGTGPRVVNAYVEI---VFDNT------DHRVP 91
L+H+ T P+ E V D DH VP
Sbjct: 31 LHLVHDVTSPQAFEGLREAGRKVRDPEKTVATFDHNVP 68
>gnl|CDD|213195 cd03228, ABCC_MRP_Like, ATP-binding cassette domain of multidrug
resistance protein-like transporters. The MRP
(Multidrug Resistance Protein)-like transporters are
involved in drug, peptide, and lipid export. They
belong to the subfamily C of the ATP-binding cassette
(ABC) superfamily of transport proteins. The ABCC
subfamily contains transporters with a diverse
functional spectrum that includes ion transport, cell
surface receptor, and toxin secretion activities. The
MRP-like family, similar to all ABC proteins, have a
common four-domain core structure constituted by two
membrane-spanning domains, each composed of six
transmembrane (TM) helices, and two nucleotide-binding
domains (NBD). ABC transporters are a subset of
nucleotide hydrolases that contain a signature motif,
Q-loop, and H-loop/switch region, in addition to, the
Walker A motif/P-loop and Walker B motif commonly found
in a number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 171
Score = 25.8 bits (58), Expect = 4.2
Identities = 7/11 (63%), Positives = 9/11 (81%)
Query: 29 VVVGRNGSGKS 39
+VG +GSGKS
Sbjct: 32 AIVGPSGSGKS 42
>gnl|CDD|233305 TIGR01189, ccmA, heme ABC exporter, ATP-binding protein CcmA.
This model describes the cyt c biogenesis protein
encoded by ccmA in bacteria. An exception is, an
arabidopsis protein. Quite likely this is encoded by an
organelle. Bacterial c-type cytocromes are located on
the periplasmic side of the cytoplasmic membrane.
Several gene products encoded in a locus designated as
'ccm' are implicated in the transport and assembly of
the functional cytochrome C. This cluster includes
genes: ccmA;B;C;D;E;F;G and H. The posttranslational
pathway includes the transport of heme moiety, the
secretion of the apoprotein and the covalent attachment
of the heme with the apoprotein. The proteins ccmA and
B represent an ABC transporter; ccmC and D participate
in heme transfer to ccmE, which function as a
periplasmic heme chaperone. The presence of ccmF, G and
H is suggested to be obligatory for the final
functional assembly of cytochrome c [Protein fate,
Protein and peptide secretion and trafficking,
Transport and binding proteins, Other].
Length = 198
Score = 25.8 bits (57), Expect = 4.4
Identities = 6/11 (54%), Positives = 7/11 (63%)
Query: 29 VVVGRNGSGKS 39
V G NG GK+
Sbjct: 30 QVTGPNGIGKT 40
>gnl|CDD|213202 cd03235, ABC_Metallic_Cations, ATP-binding cassette domain of the
metal-type transporters. This family includes
transporters involved in the uptake of various metallic
cations such as iron, manganese, and zinc. The ATPases
of this group of transporters are very similar to
members of iron-siderophore uptake family suggesting
that they share a common ancestor. The best
characterized metal-type ABC transporters are the
YfeABCD system of Y. pestis, the SitABCD system of
Salmonella enterica serovar Typhimurium, and the
SitABCD transporter of Shigella flexneri. Moreover
other uncharacterized homologs of these metal-type
transporters are mainly found in pathogens like
Haemophilus or enteroinvasive E. coli isolates.
Length = 213
Score = 26.0 bits (58), Expect = 4.4
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 30 VVGRNGSGKSNFFFAI 45
+VG NG+GKS AI
Sbjct: 30 IVGPNGAGKSTLLKAI 45
>gnl|CDD|206690 cd04104, p47_IIGP_like, p47 GTPase family includes IGTP,
TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. The p47
GTPase family consists of several highly homologous
proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI,
LRG-47, and IIGP1. They are found in higher eukaryotes
where they play a role in immune resistance against
intracellular pathogens. p47 proteins exist at low
resting levels in mouse cells, but are strongly induced
by Type II interferon (IFN-gamma). ITGP is critical for
resistance to Toxoplasma gondii infection and in
involved in inhibition of Coxsackievirus-B3-induced
apoptosis. TGTP was shown to limit vesicular stomatitis
virus (VSV) infection of fibroblasts in vitro. IRG-47
is involved in resistance to T. gondii infection.
LRG-47 has been implicated in resistance to T. gondii,
Listeria monocytogenes, Leishmania, and mycobacterial
infections. IIGP1 has been shown to localize to the ER
and to the Golgi membranes in IFN-induced cells and
inflamed tissues. In macrophages, IIGP1 interacts with
hook3, a microtubule binding protein that participates
in the organization of the cis-Golgi compartment.
Length = 197
Score = 25.8 bits (57), Expect = 4.6
Identities = 9/26 (34%), Positives = 17/26 (65%)
Query: 30 VVGRNGSGKSNFFFAIQFVLSDESTS 55
V G +G+GKS+F A++ + +E +
Sbjct: 6 VTGESGAGKSSFINALRGIGHEEEGA 31
>gnl|CDD|206621 pfam14455, Metal_CEHH, Predicted metal binding domain. A
predicted metal-binding domain that is found in
gene-neighborhood associations with genes encoding
components of the bacterial homologs of the ubiquitin
modification pathway including the E1, E2, JAB
metallopeptidase and ubiquitin proteins. The domain is
characterized by a conserved motif with a
CxxxxxEYHxxxxH signature.
Length = 177
Score = 25.7 bits (56), Expect = 4.6
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 72 PRVVNAYVEIVFDNTDHRVP 91
PR++ A V + F N D R P
Sbjct: 50 PRIIGAAVRLDFTNYDLRPP 69
>gnl|CDD|213181 cd03214, ABC_Iron-Siderophores_B12_Hemin, ATP-binding component
of iron-siderophores, vitamin B12 and hemin
transporters and related proteins. ABC transporters,
involved in the uptake of siderophores, heme, and
vitamin B12, are widely conserved in bacteria and
archaea. Only very few species lack representatives of
the siderophore family transporters. The E. coli BtuCD
protein is an ABC transporter mediating vitamin B12
uptake. The two ATP-binding cassettes (BtuD) are in
close contact with each other, as are the two
membrane-spanning subunits (BtuC); this arrangement is
distinct from that observed for the E. coli lipid
flippase MsbA. The BtuC subunits provide 20
transmembrane helices grouped around a translocation
pathway that is closed to the cytoplasm by a gate
region, whereas the dimer arrangement of the BtuD
subunits resembles the ATP-bound form of the Rad50 DNA
repair enzyme. A prominent cytoplasmic loop of BtuC
forms the contact region with the ATP-binding cassette
and represent a conserved motif among the ABC
transporters.
Length = 180
Score = 25.9 bits (58), Expect = 4.9
Identities = 6/11 (54%), Positives = 9/11 (81%)
Query: 29 VVVGRNGSGKS 39
++G NG+GKS
Sbjct: 29 GILGPNGAGKS 39
>gnl|CDD|213187 cd03220, ABC_KpsT_Wzt, ATP-binding cassette component of
polysaccharide transport system. The KpsT/Wzt ABC
transporter subfamily is involved in extracellular
polysaccharide export. Among the variety of
membrane-linked or extracellular polysaccharides
excreted by bacteria, only capsular polysaccharides,
lipopolysaccharides, and teichoic acids have been shown
to be exported by ABC transporters. A typical system is
made of a conserved integral membrane and an ABC. In
addition to these proteins, capsular polysaccharide
exporter systems require two 'accessory' proteins to
perform their function: a periplasmic (E.coli) or a
lipid-anchored outer membrane protein called OMA
(Neisseria meningitidis and Haemophilus influenza) and
a cytoplasmic membrane protein MPA2.
Length = 224
Score = 25.6 bits (57), Expect = 5.0
Identities = 7/10 (70%), Positives = 10/10 (100%)
Query: 30 VVGRNGSGKS 39
++GRNG+GKS
Sbjct: 53 LIGRNGAGKS 62
>gnl|CDD|236861 PRK11147, PRK11147, ABC transporter ATPase component; Reviewed.
Length = 635
Score = 26.1 bits (58), Expect = 5.0
Identities = 8/9 (88%), Positives = 9/9 (100%)
Query: 31 VGRNGSGKS 39
VGRNG+GKS
Sbjct: 35 VGRNGAGKS 43
>gnl|CDD|236992 PRK11819, PRK11819, putative ABC transporter ATP-binding protein;
Reviewed.
Length = 556
Score = 25.8 bits (58), Expect = 5.5
Identities = 7/10 (70%), Positives = 9/10 (90%)
Query: 30 VVGRNGSGKS 39
V+G NG+GKS
Sbjct: 38 VLGLNGAGKS 47
>gnl|CDD|202437 pfam02866, Ldh_1_C, lactate/malate dehydrogenase, alpha/beta
C-terminal domain. L-lactate dehydrogenases are
metabolic enzymes which catalyze the conversion of
L-lactate to pyruvate, the last step in anaerobic
glycolysis. L-2-hydroxyisocaproate dehydrogenases are
also members of the family. Malate dehydrogenases
catalyze the interconversion of malate to oxaloacetate.
The enzyme participates in the citric acid cycle.
L-lactate dehydrogenase is also found as a lens
crystallin in bird and crocodile eyes.
Length = 173
Score = 25.4 bits (56), Expect = 5.7
Identities = 11/27 (40%), Positives = 14/27 (51%), Gaps = 1/27 (3%)
Query: 54 TSLRHSDSRQAL-LHEGTGPRVVNAYV 79
T+L + +R L G PR VN YV
Sbjct: 1 TTLDTARARTFLAEKFGVDPRSVNVYV 27
>gnl|CDD|237452 PRK13632, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 271
Score = 25.7 bits (57), Expect = 6.1
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 30 VVGRNGSGKSNF 41
++G NGSGKS
Sbjct: 40 ILGHNGSGKSTI 51
>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 = 25.4 bits (56), Expect = 6.1
Identities = 19/69 (27%), Positives = 26/69 (37%), Gaps = 9/69 (13%)
Query: 12 KSYKEQTVVEPFDKR--HNVVVGRNGSGKSNFFFAIQFVLSDESTSLRHSDSRQALLHEG 69
K YK V D R + R+ +SN AI F S+ + S LH
Sbjct: 3 KVYKSSGEVTLTDCRVQPTFLDYRSAGLESNLIVAIDFTKSNGWPGEKRS------LHYI 56
Query: 70 TGPRVVNAY 78
+ R +N Y
Sbjct: 57 SPGR-LNPY 64
>gnl|CDD|213256 cd03289, ABCC_CFTR2, ATP-binding cassette domain 2 of
CFTR,subfamily C. The cystic fibrosis transmembrane
regulator (CFTR), the product of the gene mutated in
patients with cystic fibrosis, has adapted the ABC
transporter structural motif to form a tightly
regulated anion channel at the apical surface of many
epithelia. Use of the term assembly of a functional ion
channel implies the coming together of subunits or at
least smaller not-yet functional components of the
active whole. In fact, on the basis of current
knowledge only the CFTR polypeptide itself is required
to form an ATP- and protein kinase A-dependent
low-conductance chloride channel of the type present in
the apical membrane of many epithelial cells. CFTR
displays the typical organization (IM-ABC)2 and carries
a characteristic hydrophilic R-domain that separates
IM1-ABC1 from IM2-ABC2.
Length = 275
Score = 25.6 bits (56), Expect = 6.4
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 30 VVGRNGSGKSNFFFAIQFVLSDE 52
++GR GSGKS A +L+ E
Sbjct: 35 LLGRTGSGKSTLLSAFLRLLNTE 57
>gnl|CDD|181888 PRK09473, oppD, oligopeptide transporter ATP-binding component;
Provisional.
Length = 330
Score = 25.5 bits (56), Expect = 6.9
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 30 VVGRNGSGKSNFFFAI 45
+VG +GSGKS FA+
Sbjct: 47 IVGESGSGKSQTAFAL 62
>gnl|CDD|163431 TIGR03719, ABC_ABC_ChvD, ATP-binding cassette protein, ChvD family.
Members of this protein family have two copies of the
ABC transporter ATP-binding cassette, but are found
outside the common ABC transporter operon structure that
features integral membrane permease proteins and
substrate-binding proteins encoded next to the
ATP-binding cassette (ABC domain) protein. The member
protein ChvD from Agrobacterium tumefaciens was
identified as both a candidate to interact with VirB8,
based on yeast two-hybrid analysis, and as an apparent
regulator of VirG. The general function of this protein
family is unknown.
Length = 552
Score = 25.7 bits (57), Expect = 7.0
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 30 VVGRNGSGKSNFF 42
V+G NG+GKS F
Sbjct: 353 VIGPNGAGKSTLF 365
>gnl|CDD|226929 COG4559, COG4559, ABC-type hemin transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 259
Score = 25.4 bits (56), Expect = 7.1
Identities = 6/14 (42%), Positives = 9/14 (64%)
Query: 28 NVVVGRNGSGKSNF 41
++G NG+GKS
Sbjct: 30 LAILGPNGAGKSTL 43
>gnl|CDD|213208 cd03241, ABC_RecN, ATP-binding cassette domain of RecN. RecN
ATPase involved in DNA repair; similar to ABC
(ATP-binding cassette) transporter nucleotide-binding
domain; ABC transporters are a large family of proteins
involved in the transport of a wide variety of
different compounds including sugars, ions, peptides,
and more complex organic molecules. The nucleotide
binding domain shows the highest similarity between all
members of the family. ABC transporters are a subset of
nucleotide hydrolases that contain a signature motif,
Q-loop, and H-loop/switch region, in addition to, the
Walker A motif/P-loop and Walker B motif commonly found
in a number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 276
Score = 25.2 bits (56), Expect = 8.0
Identities = 17/67 (25%), Positives = 27/67 (40%), Gaps = 16/67 (23%)
Query: 23 FDKRHNVVVGRNGSGKSNFFFAIQFVLSD--ESTSLRHSDSRQALLHEGTGPRVVNAYVE 80
F++ V+ G G+GKS A+ +L + +R + A VE
Sbjct: 19 FEEGLTVLTGETGAGKSILLDALSLLLGGRASADLIRSGAEK--------------AVVE 64
Query: 81 IVFDNTD 87
VFD +D
Sbjct: 65 GVFDISD 71
>gnl|CDD|223473 COG0396, sufC, Cysteine desulfurase activator ATPase
[Posttranslational modification, protein turnover,
chaperones].
Length = 251
Score = 25.2 bits (56), Expect = 8.1
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 28 NVVVGRNGSGKSNFFFAI 45
+ ++G NGSGKS + I
Sbjct: 33 HAIMGPNGSGKSTLAYTI 50
>gnl|CDD|237422 PRK13548, hmuV, hemin importer ATP-binding subunit; Provisional.
Length = 258
Score = 25.1 bits (56), Expect = 8.2
Identities = 6/11 (54%), Positives = 9/11 (81%)
Query: 29 VVVGRNGSGKS 39
++G NG+GKS
Sbjct: 32 AILGPNGAGKS 42
>gnl|CDD|184195 PRK13635, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 279
Score = 25.0 bits (55), Expect = 8.6
Identities = 8/12 (66%), Positives = 9/12 (75%)
Query: 30 VVGRNGSGKSNF 41
+VG NGSGKS
Sbjct: 38 IVGHNGSGKSTL 49
>gnl|CDD|224051 COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase
component [Amino acid transport and metabolism].
Length = 240
Score = 25.2 bits (56), Expect = 8.7
Identities = 12/35 (34%), Positives = 20/35 (57%), Gaps = 5/35 (14%)
Query: 12 KSYKEQTVVEPFD---KRHNVVV--GRNGSGKSNF 41
KS+ ++ V++ ++ VVV G +GSGKS
Sbjct: 10 KSFGDKEVLKGISLSVEKGEVVVIIGPSGSGKSTL 44
>gnl|CDD|224041 COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport
system, ATPase component [Inorganic ion transport and
metabolism].
Length = 248
Score = 25.2 bits (56), Expect = 8.8
Identities = 11/39 (28%), Positives = 18/39 (46%), Gaps = 5/39 (12%)
Query: 12 KSYKEQTVVEPFD---KRHNVV--VGRNGSGKSNFFFAI 45
KS+ V+E + ++ V +G +G GKS I
Sbjct: 11 KSFGGVEVLEDINLSVEKGEFVAILGPSGCGKSTLLRLI 49
>gnl|CDD|234400 TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa. This
model represents the N-terminal domain or EccCa subunit
of the type VII secretion protein EccC as found in the
Actinobacteria. Type VII secretion is defined more
broadly as including secretion systems for ESAT-6-like
proteins in the Firmicutes as well as in the
Actinobacteria, but this family does not show close
homologs in the Firmicutes [Protein fate, Protein and
peptide secretion and trafficking].
Length = 661
Score = 25.3 bits (56), Expect = 8.9
Identities = 7/16 (43%), Positives = 9/16 (56%)
Query: 27 HNVVVGRNGSGKSNFF 42
H + +G GSGKS
Sbjct: 440 HGLCIGATGSGKSELL 455
>gnl|CDD|213204 cd03237, ABC_RNaseL_inhibitor_domain2, The ATP-binding cassette
domain 2 of RNase L inhibitor. The ABC ATPase, RNase L
inhibitor (RLI), is a key enzyme in ribosomal
biogenesis, formation of translation preinitiation
complexes, and assembly of HIV capsids. RLI's are not
transport proteins and thus cluster with a group of
soluble proteins that lack the transmembrane components
commonly found in other members of the family.
Structurally, RLI's have an N-terminal Fe-S domain and
two nucleotide-binding domains which are arranged to
form two composite active sites in their interface
cleft. RLI is one of the most conserved enzymes between
archaea and eukaryotes with a sequence identity of more
than 48%. The high degree of evolutionary conservation
suggests that RLI performs a central role in archaeal
and eukaryotic physiology.
Length = 246
Score = 25.1 bits (55), Expect = 9.1
Identities = 6/13 (46%), Positives = 9/13 (69%)
Query: 29 VVVGRNGSGKSNF 41
++G NG GK+ F
Sbjct: 29 GILGPNGIGKTTF 41
>gnl|CDD|226164 COG3638, COG3638, ABC-type phosphate/phosphonate transport
system, ATPase component [Inorganic ion transport and
metabolism].
Length = 258
Score = 24.9 bits (55), Expect = 9.4
Identities = 9/56 (16%), Positives = 19/56 (33%), Gaps = 10/56 (17%)
Query: 24 DKRHNVVVGRNGSGKSNFFFAIQ----------FVLSDESTSLRHSDSRQALLHEG 69
++G +G+GKS ++ + T L+ + R+ G
Sbjct: 29 QGEMVAIIGPSGAGKSTLLRSLNGLVDPTSGEILFNGVQITKLKGKELRKLRRDIG 84
>gnl|CDD|213190 cd03223, ABCD_peroxisomal_ALDP, ATP-binding cassette domain of
peroxisomal transporter, subfamily D. Peroxisomal
ATP-binding cassette transporter (Pat) is involved in
the import of very long-chain fatty acids (VLCFA) into
the peroxisome. The peroxisomal membrane forms a
permeability barrier for a wide variety of metabolites
required for and formed during fatty acid
beta-oxidation. To communicate with the cytoplasm and
mitochondria, peroxisomes need dedicated proteins to
transport such hydrophilic molecules across their
membranes. X-linked adrenoleukodystrophy (X-ALD) is
caused by mutations in the ALD gene, which encodes ALDP
(adrenoleukodystrophy protein ), a peroxisomal integral
membrane protein that is a member of the ATP-binding
cassette (ABC) transporter protein family. The disease
is characterized by a striking and unpredictable
variation in phenotypic expression. Phenotypes include
the rapidly progressive childhood cerebral form
(CCALD), the milder adult form, adrenomyeloneuropathy
(AMN), and variants without neurologic involvement
(i.e. asymptomatic).
Length = 166
Score = 24.8 bits (55), Expect = 9.6
Identities = 7/19 (36%), Positives = 13/19 (68%)
Query: 27 HNVVVGRNGSGKSNFFFAI 45
++ G +G+GKS+ F A+
Sbjct: 29 RLLITGPSGTGKSSLFRAL 47
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
0.323 0.138 0.412
Gapped
Lambda K H
0.267 0.0570 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,425,972
Number of extensions: 455085
Number of successful extensions: 745
Number of sequences better than 10.0: 1
Number of HSP's gapped: 721
Number of HSP's successfully gapped: 146
Length of query: 109
Length of database: 10,937,602
Length adjustment: 74
Effective length of query: 35
Effective length of database: 7,655,406
Effective search space: 267939210
Effective search space used: 267939210
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (24.5 bits)