RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5271
(113 letters)
>gnl|CDD|235797 PRK06411, PRK06411, NADH dehydrogenase subunit B; Validated.
Length = 183
Score = 145 bits (368), Expect = 9e-46
Identities = 49/73 (67%), Positives = 60/73 (82%)
Query: 41 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 100
M EP+WVISMGSCAN GG YHYSYSVV+G DRI+PVD+YVPGCPP EAL+YGIL+LQKK
Sbjct: 99 MPEPKWVISMGSCANSGGMYHYSYSVVQGVDRIVPVDVYVPGCPPRPEALLYGILKLQKK 158
Query: 101 VKRMKILQSWYRR 113
+++ + + R
Sbjct: 159 IRQSERERKRGER 171
>gnl|CDD|223454 COG0377, NuoB, NADH:ubiquinone oxidoreductase 20 kD subunit and
related Fe-S oxidoreductases [Energy production and
conversion].
Length = 194
Score = 136 bits (345), Expect = 4e-42
Identities = 44/73 (60%), Positives = 54/73 (73%)
Query: 41 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 100
M EP+WVISMGSCAN GG Y SYSVV+G DR++PVD+Y+PGCPP EAL+YGIL LQ+K
Sbjct: 100 MPEPKWVISMGSCANSGGMYWNSYSVVQGVDRVVPVDVYIPGCPPRPEALLYGILLLQEK 159
Query: 101 VKRMKILQSWYRR 113
++R
Sbjct: 160 IRREGRPLRDKPG 172
>gnl|CDD|233656 TIGR01957, nuoB_fam, NADH-quinone oxidoreductase, B subunit. This
model describes the B chain of complexes that resemble
NADH-quinone oxidoreductases. The electron acceptor is a
quinone, ubiquinone, in mitochondria and most bacteria,
including Escherichia coli, where the recommended gene
symbol is nuoB. The quinone is plastoquinone in
Synechocystis (where the chain is designated K) and in
chloroplast, where NADH may be replaced by NADPH. In the
methanogenic archaeal genus Methanosarcina, NADH is
replaced by F420H2 [Energy metabolism, Electron
transport].
Length = 145
Score = 132 bits (333), Expect = 6e-41
Identities = 48/83 (57%), Positives = 63/83 (75%), Gaps = 2/83 (2%)
Query: 23 IEPGSTTCKASAVTTTSW--MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYV 80
I G+ T K + + M EP+WVISMG+CAN GG +H SYSVV+G DRI+PVD+Y+
Sbjct: 62 IVAGTVTKKMAPALRRLYDQMPEPKWVISMGACANSGGMFHTSYSVVQGVDRIVPVDVYI 121
Query: 81 PGCPPTAEALMYGILQLQKKVKR 103
PGCPP EAL+YG+++LQKK+KR
Sbjct: 122 PGCPPRPEALIYGLIKLQKKIKR 144
>gnl|CDD|183955 PRK13292, PRK13292, trifunctional NADH dehydrogenase I subunit
B/C/D; Provisional.
Length = 788
Score = 102 bits (256), Expect = 1e-26
Identities = 38/63 (60%), Positives = 51/63 (80%), Gaps = 1/63 (1%)
Query: 41 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 100
M EP+WVISMGSCAN GG Y YSVV+G ++I+PVD+Y+PGCPP EA + G++ LQ+K
Sbjct: 87 MAEPKWVISMGSCANSGGMYDV-YSVVQGVNQILPVDVYIPGCPPRPEAFLQGLMLLQEK 145
Query: 101 VKR 103
++R
Sbjct: 146 IRR 148
>gnl|CDD|173279 PRK14818, PRK14818, NADH dehydrogenase subunit B; Provisional.
Length = 173
Score = 95.0 bits (236), Expect = 6e-26
Identities = 37/62 (59%), Positives = 49/62 (79%)
Query: 41 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 100
M EP++VISMGSC+N GG + YSV +G D++IPVD+YVPGCPP EAL G+L+LQ+
Sbjct: 95 MPEPKYVISMGSCSNCGGLFQLGYSVCKGVDKVIPVDVYVPGCPPRPEALTEGLLRLQEI 154
Query: 101 VK 102
V+
Sbjct: 155 VR 156
>gnl|CDD|237822 PRK14819, PRK14819, NADH dehydrogenase subunit B; Provisional.
Length = 264
Score = 94.3 bits (234), Expect = 6e-25
Identities = 36/73 (49%), Positives = 52/73 (71%), Gaps = 1/73 (1%)
Query: 41 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 100
M EPR+VISMG+CA GG + Y+V+RG D +IPVD+Y+PGCPP EAL++ ++ LQK+
Sbjct: 96 MPEPRYVISMGACATSGGPFRDGYNVLRGIDLLIPVDVYIPGCPPRPEALLHALMTLQKQ 155
Query: 101 VKRMKILQS-WYR 112
+ + + WY
Sbjct: 156 IDAQSLGRVRWYG 168
>gnl|CDD|173274 PRK14813, PRK14813, NADH dehydrogenase subunit B; Provisional.
Length = 189
Score = 91.5 bits (227), Expect = 2e-24
Identities = 42/87 (48%), Positives = 61/87 (70%), Gaps = 3/87 (3%)
Query: 23 IEPGSTTCKAS--AVTTTSWMLEPRWVISMGSCANGGG-YYHYSYSVVRGCDRIIPVDIY 79
I G+ T K + V M EPR+V+SMGSC+N GG Y+ + Y V++G DRIIPVD+Y
Sbjct: 72 IVAGTVTMKMAERVVRLYEQMPEPRYVLSMGSCSNCGGPYWEHGYHVLKGVDRIIPVDVY 131
Query: 80 VPGCPPTAEALMYGILQLQKKVKRMKI 106
VPGCPP EAL+ G++++Q+ ++ +I
Sbjct: 132 VPGCPPRPEALIGGLMKVQELIRMEQI 158
>gnl|CDD|173277 PRK14816, PRK14816, NADH dehydrogenase subunit B; Provisional.
Length = 182
Score = 90.4 bits (224), Expect = 4e-24
Identities = 34/62 (54%), Positives = 48/62 (77%)
Query: 41 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 100
M +P++VI++G CA GG + SY V+ G D+I+PVD+Y+PGCPP EA YG++QLQ+K
Sbjct: 106 MADPKYVIAVGGCAVSGGPFKKSYHVLNGVDKILPVDVYIPGCPPRPEAFYYGMMQLQRK 165
Query: 101 VK 102
VK
Sbjct: 166 VK 167
>gnl|CDD|237821 PRK14815, PRK14815, NADH dehydrogenase subunit B; Provisional.
Length = 183
Score = 89.2 bits (221), Expect = 9e-24
Identities = 39/93 (41%), Positives = 63/93 (67%), Gaps = 3/93 (3%)
Query: 23 IEPGSTTCKASAVTTTSW--MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYV 80
I G+ T K + + M EP+WVI+MG+CA+ GG Y SYSV++G DRI+PVD+Y+
Sbjct: 78 IVAGTVTYKMALAVRRIYDQMPEPKWVIAMGACASSGGMYR-SYSVLQGVDRILPVDVYI 136
Query: 81 PGCPPTAEALMYGILQLQKKVKRMKILQSWYRR 113
GCPP EA++ +++LQKK+ + ++ +++
Sbjct: 137 SGCPPRPEAILDALIKLQKKIDTERAARTLFKK 169
>gnl|CDD|184833 PRK14820, PRK14820, NADH dehydrogenase subunit B; Provisional.
Length = 180
Score = 86.0 bits (213), Expect = 2e-22
Identities = 34/62 (54%), Positives = 51/62 (82%), Gaps = 1/62 (1%)
Query: 41 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 100
M EPRWV+++G+CA+ GG + +YSV++G DRIIPVD+YVPGCPP E ++ G++++Q+
Sbjct: 98 MAEPRWVVAVGACASSGGIFD-TYSVLQGIDRIIPVDVYVPGCPPRPEQIIDGVMRVQEL 156
Query: 101 VK 102
VK
Sbjct: 157 VK 158
>gnl|CDD|225799 COG3260, COG3260, Ni,Fe-hydrogenase III small subunit [Energy
production and conversion].
Length = 148
Score = 84.3 bits (209), Expect = 3e-22
Identities = 28/65 (43%), Positives = 44/65 (67%)
Query: 41 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 100
M EP+ VI++G+CA GG + SYSV D++IPVD+ +PGCPP EA++ G++ K
Sbjct: 74 MPEPKIVIAVGACALSGGIFKDSYSVWGPVDKVIPVDVEIPGCPPRPEAILAGLVAALGK 133
Query: 101 VKRMK 105
+++
Sbjct: 134 LEKKI 138
>gnl|CDD|173278 PRK14817, PRK14817, NADH dehydrogenase subunit B; Provisional.
Length = 181
Score = 84.6 bits (209), Expect = 5e-22
Identities = 40/93 (43%), Positives = 59/93 (63%), Gaps = 12/93 (12%)
Query: 21 PRIEP---------GSTTCKASAVTTTSW--MLEPRWVISMGSCANGGGYYHYSYSVVRG 69
PR P G+ CK + + + M +P+WV++ G CA+ GG+Y +Y+ V+G
Sbjct: 69 PRFSPRQADLLMVVGTVNCKQAPILQRVYEQMADPKWVMAFGVCASSGGFYD-NYATVQG 127
Query: 70 CDRIIPVDIYVPGCPPTAEALMYGILQLQKKVK 102
DRIIPVD+YVPGCPP E ++ GI+ LQKK++
Sbjct: 128 IDRIIPVDVYVPGCPPRPEQVLDGIMLLQKKIQ 160
>gnl|CDD|173275 PRK14814, PRK14814, NADH dehydrogenase subunit B; Provisional.
Length = 186
Score = 83.2 bits (205), Expect = 2e-21
Identities = 34/62 (54%), Positives = 51/62 (82%), Gaps = 1/62 (1%)
Query: 41 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 100
M EP++VIS+G+CA+ GG +H +Y V++G DRI+PVD+YVPGCPP EA++ +++LQ K
Sbjct: 98 MAEPKFVISVGACASSGGMFH-TYGVLQGVDRILPVDVYVPGCPPRPEAILDALVKLQTK 156
Query: 101 VK 102
+K
Sbjct: 157 LK 158
>gnl|CDD|214337 CHL00023, ndhK, NADH dehydrogenase subunit K.
Length = 225
Score = 84.0 bits (208), Expect = 3e-21
Identities = 34/64 (53%), Positives = 48/64 (75%), Gaps = 1/64 (1%)
Query: 41 MLEPRWVISMGSCANGGGYYHY-SYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQK 99
M EP++VI+MG+C GG + SYS VRG D++IPVD+Y+PGCPP EA++ I +L+K
Sbjct: 96 MPEPKYVIAMGACTITGGMFSTDSYSTVRGVDKLIPVDVYLPGCPPKPEAVIDAITKLRK 155
Query: 100 KVKR 103
K+ R
Sbjct: 156 KISR 159
>gnl|CDD|216271 pfam01058, Oxidored_q6, NADH ubiquinone oxidoreductase, 20 Kd
subunit.
Length = 122
Score = 76.4 bits (189), Expect = 2e-19
Identities = 24/61 (39%), Positives = 36/61 (59%), Gaps = 4/61 (6%)
Query: 41 MLEPRWVISMGSCANGGG---YYHYSYSV-VRGCDRIIPVDIYVPGCPPTAEALMYGILQ 96
+ + VI++G+CA GG + SY V V ++PVDI +PGCPP EA++ +L
Sbjct: 62 APKAKAVIAVGTCAAYGGIPAAGNNSYGVGVGPVLEVVPVDINIPGCPPHPEAILGTLLA 121
Query: 97 L 97
L
Sbjct: 122 L 122
>gnl|CDD|224852 COG1941, FrhG, Coenzyme F420-reducing hydrogenase, gamma subunit
[Energy production and conversion].
Length = 247
Score = 42.0 bits (99), Expect = 1e-05
Identities = 16/63 (25%), Positives = 24/63 (38%), Gaps = 20/63 (31%)
Query: 47 VISMGSCANGGG--------------YYHYSYSVVRGCDR------IIPVDIYVPGCPPT 86
V+++GSCA GG + + +I VD +PGCPP+
Sbjct: 80 VVALGSCAVTGGVQGLRNKSGEELLRPVYGDAKSTFNEESVVPLGEVIDVDYAIPGCPPS 139
Query: 87 AEA 89
E
Sbjct: 140 PEE 142
>gnl|CDD|132337 TIGR03294, FrhG, coenzyme F420 hydrogenase, subunit gamma. This
model represents that clade of F420-dependent
hydrogenases (FRH) beta subunits found exclusively and
universally in methanogenic archaea. This protein
contains two 4Fe-4S cluster binding domains (pfam00037)
and scores above the trusted cutoff to model pfam01058
for the "NADH ubiquinone oxidoreductase, 20 Kd subunit"
family.
Length = 228
Score = 37.5 bits (87), Expect = 5e-04
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 9/53 (16%)
Query: 47 VISMGSCANGGGYYHYS---------YSVVRGCDRIIPVDIYVPGCPPTAEAL 90
V+++G+CA G + YS + +I VD+ +PGCPP+ EA+
Sbjct: 81 VVALGACAATGNFTRYSRGGQQAQPQHESFVPITDVIDVDLAIPGCPPSPEAI 133
>gnl|CDD|215209 PLN02369, PLN02369, ribose-phosphate pyrophosphokinase.
Length = 302
Score = 31.2 bits (71), Expect = 0.079
Identities = 18/44 (40%), Positives = 22/44 (50%), Gaps = 5/44 (11%)
Query: 48 ISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALM 91
I++ A+G Y SV RGCD V + P CPP E LM
Sbjct: 18 ITIKRFADGEIYVQLQESV-RGCD----VFLVQPTCPPANENLM 56
>gnl|CDD|227136 COG4799, COG4799, Acetyl-CoA carboxylase, carboxyltransferase
component (subunits alpha and beta) [Lipid metabolism].
Length = 526
Score = 29.5 bits (67), Expect = 0.37
Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 11/44 (25%)
Query: 50 MGSCANGGGYYHYSYSVVRGCDRIIPVD----IYVPGCPPTAEA 89
MG CA GG Y D +I V +++ G PP +A
Sbjct: 171 MGPCAGGGAY------SPALTDFVIMVRDQSYMFLTG-PPVIKA 207
>gnl|CDD|216259 pfam01039, Carboxyl_trans, Carboxyl transferase domain. All of the
members in this family are biotin dependent
carboxylases. The carboxyl transferase domain carries
out the following reaction; transcarboxylation from
biotin to an acceptor molecule. There are two recognised
types of carboxyl transferase. One of them uses acyl-CoA
and the other uses 2-oxoacid as the acceptor molecule of
carbon dioxide. All of the members in this family
utilise acyl-CoA as the acceptor molecule.
Length = 487
Score = 29.1 bits (66), Expect = 0.40
Identities = 12/46 (26%), Positives = 17/46 (36%), Gaps = 11/46 (23%)
Query: 50 MGSCANGGGYYHYSYSVVRGCDRIIPVD----IYVPGCPPTAEALM 91
G CA GG Y D II V +++ G P + +
Sbjct: 137 TGPCAGGGAY------SPALGDFIIMVKGTSPMFLTG-PDVVKKVT 175
>gnl|CDD|233830 TIGR02350, prok_dnaK, chaperone protein DnaK. Members of this
family are the chaperone DnaK, of the DnaK-DnaJ-GrpE
chaperone system. All members of the seed alignment were
taken from completely sequenced bacterial or archaeal
genomes and (except for Mycoplasma sequence) found
clustered with other genes of this systems. This model
excludes DnaK homologs that are not DnaK itself, such as
the heat shock cognate protein HscA (TIGR01991).
However, it is not designed to distinguish among DnaK
paralogs in eukaryotes. Note that a number of dnaK genes
have shadow ORFs in the same reverse (relative to dnaK)
reading frame, a few of which have been assigned
glutamate dehydrogenase activity. The significance of
this observation is unclear; lengths of such shadow ORFs
are highly variable as if the presumptive protein
product is not conserved [Protein fate, Protein folding
and stabilization].
Length = 595
Score = 28.0 bits (63), Expect = 1.2
Identities = 16/36 (44%), Positives = 16/36 (44%), Gaps = 11/36 (30%)
Query: 72 RIIPVDIYVPGCPPTAEALMYGILQLQKKVKRMKIL 107
RII PTA AL YG L K K KIL
Sbjct: 162 RIIN--------EPTAAALAYG---LDKSKKDEKIL 186
>gnl|CDD|181767 PRK09296, PRK09296, cysteine desufuration protein SufE;
Provisional.
Length = 138
Score = 27.3 bits (61), Expect = 1.3
Identities = 9/17 (52%), Positives = 10/17 (58%)
Query: 6 RPFTASLQLTNFLTPPR 22
RP+ L LT LTP R
Sbjct: 103 RPWFEKLALTQHLTPSR 119
>gnl|CDD|215557 PLN03069, PLN03069, magnesiumprotoporphyrin-IX chelatase subunit H;
Provisional.
Length = 1220
Score = 27.4 bits (61), Expect = 1.5
Identities = 8/17 (47%), Positives = 13/17 (76%)
Query: 72 RIIPVDIYVPGCPPTAE 88
R++P ++V G PP+AE
Sbjct: 751 RLLPCGLHVIGEPPSAE 767
>gnl|CDD|232952 TIGR00391, hydA, hydrogenase (NiFe) small subunit (hydA). Called
(hupA/hydA/hupS/hoxK/vhtG) Involved in hydrogenase
reactions performing different specific functions in
different species eg (EC 1.12.2.1) in Desulfovibrio
gigas,(EC 1.12.99.3) in Wolinella succinogenes and (EC
1.18.99.1) in E.coli and a number of other species and
(EC 1.12.99.-) in the archea [Energy metabolism,
Electron transport].
Length = 365
Score = 27.2 bits (60), Expect = 1.9
Identities = 17/66 (25%), Positives = 30/66 (45%), Gaps = 11/66 (16%)
Query: 24 EPGSTTCKASAVTTTSWMLEPRWVISMGSCANGGGYY--HYSYSVVRGCDRIIPVD--IY 79
EP + +A + +I++G+C++ GG + + ++IP I
Sbjct: 137 EPIVEHIRKAAEGAAA-------IIAIGTCSSWGGVQAAGPNPTGAVPLQKVIPDKPVIN 189
Query: 80 VPGCPP 85
VPGCPP
Sbjct: 190 VPGCPP 195
>gnl|CDD|237117 PRK12493, PRK12493, magnesium chelatase subunit H; Provisional.
Length = 1310
Score = 27.2 bits (61), Expect = 2.1
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 71 DRIIPVDIYVPGCPPTAEAL 90
R+IP ++V G PPTAE
Sbjct: 738 SRLIPCGLHVIGKPPTAEEA 757
>gnl|CDD|233451 TIGR01531, glyc_debranch, glycogen debranching enzymye. glycogen
debranching enzyme possesses two different catalytic
activities; oligo-1,4-->1,4-glucantransferase (EC
2.4.1.25) and amylo-1,6-glucosidase (EC 3.2.1.33). Site
directed mutagenesis studies in S. cerevisiae indicate
that the transferase and glucosidase activities are
independent and located in different regions of the
polypeptide chain. Proteins in this model belong to the
larger alpha-amylase family. The model covers eukaryotic
proteins with a seed composed of human, nematode and
yeast sequences. Yeast seed sequence is well
characterized. The model is quite rigorous; either query
sequence yields large bit score or it fails to hit the
model altogether. There doesn't appear to be any middle
ground [Energy metabolism, Biosynthesis and degradation
of polysaccharides].
Length = 1464
Score = 26.7 bits (59), Expect = 3.1
Identities = 12/53 (22%), Positives = 21/53 (39%), Gaps = 9/53 (16%)
Query: 62 YSYSVVRGCD-------RIIPVDIYVPGCPPTAEALMYGILQ--LQKKVKRMK 105
Y V G RI P D +P A+ ++ ++ LQK + ++
Sbjct: 1103 YVEIVPNGEKILKDPVRRIYPDDDSIPVDDGRADQYLFEVIYEALQKHFQGIQ 1155
>gnl|CDD|234715 PRK00290, dnaK, molecular chaperone DnaK; Provisional.
Length = 627
Score = 26.2 bits (59), Expect = 4.4
Identities = 13/23 (56%), Positives = 13/23 (56%), Gaps = 4/23 (17%)
Query: 85 PTAEALMYGILQLQKKVKRMKIL 107
PTA AL YG L KK KIL
Sbjct: 170 PTAAALAYG---LDKK-GDEKIL 188
>gnl|CDD|213553 TIGR00706, SppA_dom, signal peptide peptidase SppA, 36K type.
The related but duplicated, double-length protein SppA
(protease IV) of E. coli was shown experimentally to
degrade signal peptides as are released by protein
processing and secretion. This protein shows stronger
homology to the C-terminal region of SppA than to the
N-terminal domain or to the related putative protease
SuhB. The member of this family from Bacillus subtilis
was shown to have properties consistent with a role in
degrading signal peptides after cleavage from precursor
proteins, although it was not demonstrated conclusively
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 208
Score = 25.8 bits (57), Expect = 4.6
Identities = 11/28 (39%), Positives = 12/28 (42%), Gaps = 5/28 (17%)
Query: 47 VISMGSCANGGGYYHYSYSVVRGCDRII 74
V SMG A GGYY + D I
Sbjct: 66 VASMGGMAASGGYY-----ISMAADEIF 88
>gnl|CDD|212676 cd10234, HSPA9-Ssq1-like_NBD, Nucleotide-binding domain of human
HSPA9 and similar proteins. This subfamily includes
human mitochondrial HSPA9 (also known as 70-kDa heat
shock protein 9, CSA; MOT; MOT2; GRP75; PBP74; GRP-75;
HSPA9B; MTHSP75; the gene encoding HSPA9 maps to
5q31.1), Escherichia coli DnaK, Saccharomyces cerevisiae
Stress-seventy subfamily Q protein 1/Ssq1p (also called
Ssc2p, Ssh1p, mtHSP70 homolog), and S. cerevisiae
Stress-Seventy subfamily C/Ssc1p (also called mtHSP70,
Endonuclease SceI 75 kDa subunit). It belongs to the
heat shock protein 70 (HSP70) family of chaperones that
assist in protein folding and assembly, and can direct
incompetent "client" proteins towards degradation.
Typically, HSP70s have a nucleotide-binding domain (NBD)
and a substrate-binding domain (SBD). The nucleotide
sits in a deep cleft formed between the two lobes of the
NBD. The two subdomains of each lobe change conformation
between ATP-bound, ADP-bound, and nucleotide-free
states. ATP binding opens up the substrate-binding site;
substrate-binding increases the rate of ATP hydrolysis.
Hsp70 chaperone activity is regulated by various
co-chaperones: J-domain proteins and nucleotide exchange
factors (NEFs); for Escherichia coli DnaK, these are the
DnaJ and GrpE, respectively.
Length = 376
Score = 25.7 bits (57), Expect = 5.8
Identities = 11/23 (47%), Positives = 12/23 (52%), Gaps = 4/23 (17%)
Query: 85 PTAEALMYGILQLQKKVKRMKIL 107
PTA AL YG+ K KIL
Sbjct: 171 PTAAALAYGL----DKKGNEKIL 189
>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 1096
Score = 26.1 bits (57), Expect = 5.9
Identities = 20/48 (41%), Positives = 22/48 (45%), Gaps = 11/48 (22%)
Query: 1 MVFIYRPFTASLQLTNFLTPPR---IEPGSTTCKASAVTTTSWMLEPR 45
MV Y P T F+T PR I P TT K S +T T MLE
Sbjct: 198 MVNSYAPST-------FMTMPRSHGITP-RTTVKDSEITATYKMLETN 237
>gnl|CDD|224654 COG1740, HyaA, Ni,Fe-hydrogenase I small subunit [Energy production
and conversion].
Length = 355
Score = 25.5 bits (56), Expect = 8.0
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 47 VISMGSCANGGGYYHYSY--SVVRGCDRII---PVDIYVPGCPPTAE 88
+I++G+CA+ GG + +I PV I +PGCPP +
Sbjct: 151 IIAVGTCASWGGIQAAKPNPTGAGPLSEVIKDKPV-INIPGCPPNPD 196
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
0.324 0.138 0.452
Gapped
Lambda K H
0.267 0.0805 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,780,168
Number of extensions: 468946
Number of successful extensions: 552
Number of sequences better than 10.0: 1
Number of HSP's gapped: 541
Number of HSP's successfully gapped: 37
Length of query: 113
Length of database: 10,937,602
Length adjustment: 77
Effective length of query: 36
Effective length of database: 7,522,344
Effective search space: 270804384
Effective search space used: 270804384
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.1 bits)