RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3916
(103 letters)
>gnl|CDD|212683 cd11733, HSPA9-like_NBD, Nucleotide-binding domain of human HSPA9,
Escherichia coli DnaK, and similar proteins. This
subgroup 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, and
Saccharomyces 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. HSPA9 is involved in
multiple processses including mitochondrial import,
antigen processing, control of cellular proliferation
and differentiation, and regulation of glucose
responses. During glucose deprivation-induced cellular
stress, HSPA9 plays an important role in the suppression
of apoptosis by inhibiting a conformational change in
Bax that allow the release of cytochrome c. DnaK
modulates the heat shock response in Escherichia coli.
It protects E. coli from protein carbonylation, an
irreversible oxidative modification that increases
during organism aging and bacterial growth arrest. Under
severe thermal stress, it functions as part of a
bi-chaperone system: the DnaK system and the
ring-forming AAA+ chaperone ClpB (Hsp104) system, to
promote cell survival. DnaK has also been shown to
cooperate with GroEL and the ribosome-associated
Escherichia coli Trigger Factor in the proper folding of
cytosolic proteins. S. cerevisiae Ssc1p is the major
HSP70 chaperone of the mitochondrial matrix, promoting
translocation of proteins from the cytosol, across the
inner membrane, to the matrix, and their subsequent
folding. Ssc1p interacts with Tim44, a peripheral inner
membrane protein associated with the TIM23 protein
translocase. It is also a subunit of the endoSceI
site-specific endoDNase and is required for full
endoSceI activity. Ssc1p plays roles in the import of
Yfh1p, a nucleus-encoded mitochondrial protein involved
in iron homeostasis (and a homolog of human frataxin,
implicated in the neurodegenerative disease,
Friedreich's ataxia). Ssc1 also participates in
translational regulation of cytochrome c oxidase (COX)
biogenesis by interacting with Mss51 and
Mss51-containing complexes.
Length = 377
Score = 184 bits (470), Expect = 4e-59
Identities = 73/97 (75%), Positives = 83/97 (85%), Gaps = 2/97 (2%)
Query: 1 MEGKQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFD 60
MEGK KVIEN+EG+RTTPSVVAFTKDGERLVG PA+RQAVTN NT YATKRLIGRRFD
Sbjct: 19 MEGKTPKVIENAEGARTTPSVVAFTKDGERLVGMPAKRQAVTNPENTLYATKRLIGRRFD 78
Query: 61 DPEIKKDMKNLSYKIVRASNGDAWV--QGKNIRISEV 95
DPE++KD+KN+ YKIV+ASNGDAWV GK S++
Sbjct: 79 DPEVQKDIKNVPYKIVKASNGDAWVEAHGKKYSPSQI 115
>gnl|CDD|240403 PTZ00400, PTZ00400, DnaK-type molecular chaperone; Provisional.
Length = 663
Score = 159 bits (405), Expect = 2e-47
Identities = 64/93 (68%), Positives = 75/93 (80%)
Query: 1 MEGKQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFD 60
MEG Q KVIENSEG RTTPSVVAFT+DG+RLVG A+RQAVTN NT +ATKRLIGRR+D
Sbjct: 58 MEGSQPKVIENSEGMRTTPSVVAFTEDGQRLVGIVAKRQAVTNPENTVFATKRLIGRRYD 117
Query: 61 DPEIKKDMKNLSYKIVRASNGDAWVQGKNIRIS 93
+ KK+ K L YKIVRASNGDAW++ + + S
Sbjct: 118 EDATKKEQKILPYKIVRASNGDAWIEAQGKKYS 150
>gnl|CDD|234715 PRK00290, dnaK, molecular chaperone DnaK; Provisional.
Length = 627
Score = 152 bits (386), Expect = 7e-45
Identities = 60/85 (70%), Positives = 72/85 (84%), Gaps = 2/85 (2%)
Query: 1 MEGKQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFD 60
MEG + KVIEN+EG+RTTPSVVAFTKDGERLVG PA+RQAVTN NT ++ KRL+GRR
Sbjct: 19 MEGGEPKVIENAEGARTTPSVVAFTKDGERLVGQPAKRQAVTNPENTIFSIKRLMGRR-- 76
Query: 61 DPEIKKDMKNLSYKIVRASNGDAWV 85
D E++KD+K + YKIV+A NGDAWV
Sbjct: 77 DEEVQKDIKLVPYKIVKADNGDAWV 101
>gnl|CDD|215656 pfam00012, HSP70, Hsp70 protein. Hsp70 chaperones help to fold
many proteins. Hsp70 assisted folding involves repeated
cycles of substrate binding and release. Hsp70 activity
is ATP dependent. Hsp70 proteins are made up of two
regions: the amino terminus is the ATPase domain and the
carboxyl terminus is the substrate binding region.
Length = 598
Score = 141 bits (357), Expect = 6e-41
Identities = 51/86 (59%), Positives = 66/86 (76%), Gaps = 1/86 (1%)
Query: 1 MEGKQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFD 60
MEG +VI N EG+RTTPSVVAFT ERLVG A+RQAVTN NT ++ KRLIGR+F
Sbjct: 16 MEGGGPEVIANDEGNRTTPSVVAFTPK-ERLVGQAAKRQAVTNPKNTVFSVKRLIGRKFS 74
Query: 61 DPEIKKDMKNLSYKIVRASNGDAWVQ 86
DP +++D+K++ YK+V+ NGDA V+
Sbjct: 75 DPVVQRDIKHVPYKVVKLPNGDAGVE 100
>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 = 128 bits (323), Expect = 3e-37
Identities = 48/85 (56%), Positives = 61/85 (71%), Gaps = 3/85 (3%)
Query: 1 MEGKQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFD 60
MEG + VI N+EGSRTTPSVVAFTK GERLVG PA+RQAVTN NT ++ KR +GR+FD
Sbjct: 19 MEGGEPTVIPNAEGSRTTPSVVAFTKKGERLVGQPAKRQAVTNPENTIFSIKRFMGRKFD 78
Query: 61 DPEIKKDMKNLSYKIVRASNGDAWV 85
+ E ++ + YK+V G+ V
Sbjct: 79 EVEEERKV---PYKVVVDEGGNYKV 100
>gnl|CDD|140213 PTZ00186, PTZ00186, heat shock 70 kDa precursor protein;
Provisional.
Length = 657
Score = 125 bits (314), Expect = 5e-35
Identities = 61/89 (68%), Positives = 73/89 (82%), Gaps = 1/89 (1%)
Query: 1 MEGKQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFD 60
M+G +A+V+ENSEG RTTPSVVAF K E+LVG A+RQA+TN +TFYA KRLIGRRF+
Sbjct: 44 MDGDKARVLENSEGFRTTPSVVAF-KGSEKLVGLAAKRQAITNPQSTFYAVKRLIGRRFE 102
Query: 61 DPEIKKDMKNLSYKIVRASNGDAWVQGKN 89
D I+KD+KN+ YKIVRA NGDAWVQ N
Sbjct: 103 DEHIQKDIKNVPYKIVRAGNGDAWVQDGN 131
>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 = 120 bits (304), Expect = 2e-33
Identities = 51/86 (59%), Positives = 63/86 (73%), Gaps = 3/86 (3%)
Query: 1 MEGKQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFD 60
MEG + VI N+EG+RTTPSVVAFTK+GERLVG PA+RQAVTN NT Y+ KR +GRRFD
Sbjct: 17 MEGGEPVVIPNAEGARTTPSVVAFTKNGERLVGQPAKRQAVTNPENTIYSIKRFMGRRFD 76
Query: 61 DPEIKKDMKNLSYKIVRASNGDAWVQ 86
E+ ++ K + YK V GD V+
Sbjct: 77 --EVTEEAKRVPYK-VVGDGGDVRVK 99
>gnl|CDD|212684 cd11734, Ssq1_like_NBD, Nucleotide-binding domain of Saccharomyces
cerevisiae Ssq1 and similar proteins. Ssq1p (also
called Stress-seventy subfamily Q protein 1, Ssc2p,
Ssh1p, mtHSP70 homolog) 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). S. cerevisiae Ssq1p is a mitochondrial
chaperone that is involved in iron-sulfur (Fe/S) center
biogenesis. Ssq1p plays a role in the maturation of
Yfh1p, a nucleus-encoded mitochondrial protein involved
in iron homeostasis (and a homolog of human frataxin,
implicated in the neurodegenerative disease,
Friedreich's ataxia).
Length = 373
Score = 116 bits (292), Expect = 8e-33
Identities = 46/83 (55%), Positives = 58/83 (69%), Gaps = 1/83 (1%)
Query: 4 KQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFDDPE 63
+IEN+EG RTTPS+V+FTK G LVG A+RQ + NTF+ATKRLIGR+F D E
Sbjct: 22 TTPVIIENAEGKRTTPSIVSFTKTGI-LVGEAAKRQEALHPENTFFATKRLIGRQFKDVE 80
Query: 64 IKKDMKNLSYKIVRASNGDAWVQ 86
+++ MK YKIV NGDAW+
Sbjct: 81 VQRKMKVPYYKIVEGRNGDAWIY 103
>gnl|CDD|214360 CHL00094, dnaK, heat shock protein 70.
Length = 621
Score = 107 bits (270), Expect = 9e-29
Identities = 49/92 (53%), Positives = 62/92 (67%), Gaps = 9/92 (9%)
Query: 1 MEGKQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFD 60
MEG + VI N+EG RTTPS+VA+TK G+ LVG A+RQAV N NTFY+ KR IGR+F
Sbjct: 19 MEGGKPTVIPNAEGFRTTPSIVAYTKKGDLLVGQIAKRQAVINPENTFYSVKRFIGRKFS 78
Query: 61 DPEIKKDMKNLSYKIVRASNGDAWVQGKNIRI 92
EI ++ K +SYK+ SNG NI+I
Sbjct: 79 --EISEEAKQVSYKVKTDSNG-------NIKI 101
>gnl|CDD|184038 PRK13410, PRK13410, molecular chaperone DnaK; Provisional.
Length = 668
Score = 106 bits (267), Expect = 2e-28
Identities = 52/101 (51%), Positives = 59/101 (58%), Gaps = 15/101 (14%)
Query: 1 MEGKQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFD 60
MEG + VI N+EG RTTPSVV FTKDGE LVG ARRQ V N NTFY KR IGRR+D
Sbjct: 19 MEGGKPVVIANAEGMRTTPSVVGFTKDGELLVGQLARRQLVLNPQNTFYNLKRFIGRRYD 78
Query: 61 DPEIKKDMKNLSYKIVRASNGDAWVQGKNIRISEVVEVLCP 101
E+ + K + Y I R G N+RI CP
Sbjct: 79 --ELDPESKRVPYTIRRNEQG-------NVRIK------CP 104
>gnl|CDD|215618 PLN03184, PLN03184, chloroplast Hsp70; Provisional.
Length = 673
Score = 101 bits (254), Expect = 1e-26
Identities = 47/103 (45%), Positives = 67/103 (65%), Gaps = 15/103 (14%)
Query: 1 MEGKQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFD 60
MEG + ++ N+EG RTTPSVVA+TK+G+RLVG A+RQAV N NTF++ KR IGR+
Sbjct: 56 MEGGKPTIVTNAEGQRTTPSVVAYTKNGDRLVGQIAKRQAVVNPENTFFSVKRFIGRKMS 115
Query: 61 DPEIKKDMKNLSYKIVRASNGDAWVQGKNIRISEVVEVLCPNI 103
E+ ++ K +SY++VR NG+ V++ CP I
Sbjct: 116 --EVDEESKQVSYRVVRDENGN-------------VKLDCPAI 143
>gnl|CDD|184039 PRK13411, PRK13411, molecular chaperone DnaK; Provisional.
Length = 653
Score = 100 bits (252), Expect = 2e-26
Identities = 44/91 (48%), Positives = 61/91 (67%), Gaps = 4/91 (4%)
Query: 1 MEGKQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFD 60
+EG + VI NSEG RTTPS+V F K G+RLVG A+RQAVTN+ NT Y+ KR IGRR+D
Sbjct: 19 LEGGKPIVIPNSEGGRTTPSIVGFGKSGDRLVGQLAKRQAVTNAENTVYSIKRFIGRRWD 78
Query: 61 DPEIKKDMKNLSYKIVRASNG--DAWVQGKN 89
D E ++ + Y V+ + + ++G+N
Sbjct: 79 DTEEER--SRVPYTCVKGRDDTVNVQIRGRN 107
>gnl|CDD|212681 cd10241, HSPA5-like_NBD, Nucleotide-binding domain of human HSPA5
and similar proteins. This subfamily includes human
HSPA5 (also known as 70-kDa heat shock protein 5,
glucose-regulated protein 78/GRP78, and immunoglobulin
heavy chain-binding protein/BIP, MIF2; the gene
encoding HSPA5 maps to 9q33.3.), Sacchaormyces
cerevisiae Kar2p (also known as Grp78p), and related
proteins. This subfamily 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. HSPA5 and Kar2p
are chaperones of the endoplasmic reticulum (ER).
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). Multiple ER
DNAJ domain proteins have been identified and may exist
in distinct complexes with HSPA5 in various locations
in the ER, for example DNAJC3-p58IPK in the lumen.
HSPA5-NEFs include SIL1 and an atypical HSP70 family
protein HYOU1/ORP150. The ATPase activity of Kar2p is
stimulated by the NEFs: Sil1p and Lhs1p.
Length = 374
Score = 95.5 bits (238), Expect = 6e-25
Identities = 40/80 (50%), Positives = 55/80 (68%), Gaps = 1/80 (1%)
Query: 1 MEGKQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFD 60
+ + ++I N +G+R TPS VAFT DGERL+G A+ QA +N NT + KRLIGR+FD
Sbjct: 18 FKNGRVEIIANDQGNRITPSYVAFT-DGERLIGDAAKNQATSNPENTIFDVKRLIGRKFD 76
Query: 61 DPEIKKDMKNLSYKIVRASN 80
D E++KD+K L YK+V
Sbjct: 77 DKEVQKDIKLLPYKVVNKDG 96
>gnl|CDD|212675 cd10233, HSPA1-2_6-8-like_NBD, Nucleotide-binding domain of
HSPA1-A, -B, -L, HSPA-2, -6, -7, -8, and similar
proteins. This subfamily includes human HSPA1A (70-kDa
heat shock protein 1A, also known as HSP72; HSPA1;
HSP70I; HSPA1B; HSP70-1; HSP70-1A), HSPA1B (70-kDa heat
shock protein 1B, also known as HSPA1A; HSP70-2;
HSP70-1B), and HSPA1L (70-kDa heat shock protein
1-like, also known as HSP70T; hum70t; HSP70-1L;
HSP70-HOM). The genes for these three HSPA1 proteins
map in close proximity on the major histocompatibility
complex (MHC) class III region on chromosome 6, 6p21.3.
This subfamily also includes human HSPA8 (heat shock
70kDa protein 8, also known as LAP1; HSC54; HSC70;
HSC71; HSP71; HSP73; NIP71; HSPA10; the HSPA8 gene maps
to 11q24.1), human HSPA2 (70-kDa heat shock protein 2,
also known as HSP70-2; HSP70-3, the HSPA2 gene maps to
14q24.1), human HSPA6 (also known as heat shock 70kDa
protein 6 (HSP70B') gi 94717614, the HSPA6 gene maps to
1q23.3), human HSPA7 (heat shock 70kDa protein 7 , also
known as HSP70B; the HSPA7 gene maps to 1q23.3) and
Saccharmoyces cerevisiae Stress-Seventy subfamily
B/Ssb1p. This subfamily 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). Associations of polymorphisms
within the MHC-III HSP70 gene locus with longevity,
systemic lupus erythematosus, Meniere's disease,
noise-induced hearing loss, high-altitude pulmonary
edema, and coronary heart disease, have been found.
HSPA2 is involved in cancer cell survival, is required
for maturation of male gametophytes, and is linked to
male infertility. The induction of HSPA6 is a biomarker
of cellular stress. HSPA8 participates in the folding
and trafficking of client proteins to different
subcellular compartments, and in the signal
transduction and apoptosis process; it has been shown
to protect cardiomyocytes against oxidative stress
partly through an interaction with alpha-enolase. S.
cerevisiae Ssb1p, is part of the ribosome-associated
complex (RAC), it acts as a chaperone for nascent
polypeptides, and is important for translation
fidelity; Ssb1p is also a [PSI+] prion-curing factor.
Length = 376
Score = 90.1 bits (224), Expect = 8e-23
Identities = 36/70 (51%), Positives = 48/70 (68%), Gaps = 1/70 (1%)
Query: 8 VIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFDDPEIKKD 67
+I N +G+RTTPS VAFT D ERL+G A+ Q N NT + KRLIGR+F DP ++ D
Sbjct: 23 IIANDQGNRTTPSYVAFT-DTERLIGDAAKNQVAMNPTNTVFDAKRLIGRKFSDPVVQSD 81
Query: 68 MKNLSYKIVR 77
MK+ +K+V
Sbjct: 82 MKHWPFKVVN 91
>gnl|CDD|212667 cd10170, HSP70_NBD, Nucleotide-binding domain of the HSP70 family.
HSP70 (70-kDa heat shock protein) family chaperones
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). Some HSP70 family members are not
chaperones but instead, function as NEFs to remove ADP
from their HSP70 chaperone partners during the ATP
hydrolysis cycle, some may function as both chaperones
and NEFs.
Length = 369
Score = 88.4 bits (220), Expect = 3e-22
Identities = 41/92 (44%), Positives = 52/92 (56%), Gaps = 1/92 (1%)
Query: 2 EGKQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFDD 61
G + ++I N EGSRTTPSVV F DGE LVG A+RQA+ N NT KRLIGR+FDD
Sbjct: 17 NGGKPEIIPNGEGSRTTPSVVYFDGDGEVLVGEAAKRQALDNPENTVGDFKRLIGRKFDD 76
Query: 62 PEIKKDMKNLSYKIVRASNGDAWVQGKNIRIS 93
P ++ K + A V+ + S
Sbjct: 77 PLVQSA-KKVIGVDRGAPIIPVPVELGGKKYS 107
>gnl|CDD|212670 cd10228, HSPA4_like_NDB, Nucleotide-binding domain of 105/110 kDa
heat shock proteins including HSPA4 and similar
proteins. This subgroup includes the human proteins,
HSPA4 (also known as 70-kDa heat shock protein 4,
APG-2, HS24/P52, hsp70 RY, and HSPH2; the human HSPA4
gene maps to 5q31.1), HSPA4L (also known as 70-kDa heat
shock protein 4-like, APG-1, HSPH3, and OSP94; the
human HSPA4L gene maps to 4q28), and HSPH1 (also known
as heat shock 105kDa/110kDa protein 1, HSP105; HSP105A;
HSP105B; NY-CO-25; the human HSPH1 gene maps to
13q12.3), Saccharomyces cerevisiae Sse1p and Sse2p, and
a sea urchin sperm receptor. It belongs to the 105/110
kDa heat shock protein (HSP105/110) subfamily of the
HSP70-like family, and includes proteins believed to
function generally as co-chaperones of HSP70
chaperones, acting as nucleotide exchange factors
(NEFs), to remove ADP from their HSP70 chaperone
partners during the ATP hydrolysis cycle. HSP70
chaperones assist in protein folding and assembly, and
can direct incompetent "client" proteins towards
degradation. Like HSP70 chaperones, HSP105/110s have an
N-terminal nucleotide-binding domain (NBD) and a
C-terminal substrate-binding domain (SBD). For HSP70
chaperones, 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 also regulated by J-domain proteins.
Length = 381
Score = 84.9 bits (211), Expect = 6e-21
Identities = 34/75 (45%), Positives = 52/75 (69%), Gaps = 1/75 (1%)
Query: 8 VIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFDDPEIKKD 67
V+ N +R TPS+V+F + +RL+G A+ QA++N NT KRLIGR+FDDPE++K+
Sbjct: 24 VVANEYSNRETPSLVSFG-EKQRLIGEAAKNQAISNFKNTVRNFKRLIGRKFDDPEVQKE 82
Query: 68 MKNLSYKIVRASNGD 82
+K L +K+V +G
Sbjct: 83 LKFLPFKVVELPDGK 97
>gnl|CDD|240227 PTZ00009, PTZ00009, heat shock 70 kDa protein; Provisional.
Length = 653
Score = 84.1 bits (208), Expect = 2e-20
Identities = 35/74 (47%), Positives = 48/74 (64%), Gaps = 1/74 (1%)
Query: 8 VIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFDDPEIKKD 67
+I N +G+RTTPS VAFT D ERL+G A+ Q N NT + KRLIGR+FDD ++ D
Sbjct: 28 IIANDQGNRTTPSYVAFT-DTERLIGDAAKNQVARNPENTVFDAKRLIGRKFDDSVVQSD 86
Query: 68 MKNLSYKIVRASNG 81
MK+ +K+ +
Sbjct: 87 MKHWPFKVTTGGDD 100
>gnl|CDD|223520 COG0443, DnaK, Molecular chaperone [Posttranslational
modification, protein turnover, chaperones].
Length = 579
Score = 82.4 bits (204), Expect = 7e-20
Identities = 35/57 (61%), Positives = 41/57 (71%)
Query: 2 EGKQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRR 58
G KVIEN+EG R TPSVVAF+K+GE LVG A+RQAV N NT ++ KR IGR
Sbjct: 24 GGGLPKVIENAEGERLTPSVVAFSKNGEVLVGQAAKRQAVDNPENTIFSIKRKIGRG 80
>gnl|CDD|212680 cd10238, HSPA14-like_NBD, Nucleotide-binding domain of human
HSPA14 and similar proteins. Human HSPA14 (also known
as 70-kDa heat shock protein 14, HSP70L1, HSP70-4; the
gene encoding HSPA14 maps to 10p13), is
ribosome-associated and 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). HSPA14
interacts with the J-protein MPP11 to form the
mammalian ribosome-associated complex (mRAC). HSPA14
participates in a pathway along with Nijmegen breakage
syndrome 1 (NBS1, also known as p85 or nibrin), heat
shock transcription factor 4b (HSF4b), and HSPA4
(belonging to a different subfamily), that induces
tumor migration, invasion, and transformation. HSPA14
is a potent T helper cell (Th1) polarizing adjuvant
that contributes to antitumor immune responses.
Length = 375
Score = 62.4 bits (152), Expect = 7e-13
Identities = 30/75 (40%), Positives = 45/75 (60%), Gaps = 1/75 (1%)
Query: 5 QAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFDDPEI 64
+A V+ N G R TP+VVAFT D E +VG A++ + N+ANT K+++GR + DP
Sbjct: 21 RADVVANDAGDRVTPAVVAFT-DTEVIVGLAAKQGRIRNAANTIVKNKQILGRSYSDPFK 79
Query: 65 KKDMKNLSYKIVRAS 79
+K+ S KI+
Sbjct: 80 QKEKTESSCKIIEKD 94
>gnl|CDD|212689 cd11739, HSPH1_NBD, Nucleotide-binding domain of HSPH1. Human
HSPH1 (also known as heat shock 105kDa/110kDa protein 1,
HSP105; HSP105A; HSP105B; NY-CO-25; the human HSPH1 gene
maps to 13q12.3) suppresses the aggregation of denatured
proteins caused by heat shock in vitro, and may
substitute for HSP70 family proteins to suppress the
aggregation of denatured proteins in cells under severe
stress. It reduces the protein aggregation and
cytotoxicity associated with Polyglutamine (PolyQ)
diseases, including Huntington's disease, which are a
group of inherited neurodegenerative disorders sharing
the characteristic feature of having insoluble protein
aggregates in neurons. The expression of HSPH1 is
elevated in various malignant tumors, including
malignant melanoma, and there is a direct correlation
between HSPH1 expression and B-cell non-Hodgkin
lymphomas (B-NHLs) aggressiveness and proliferation.
HSPH1 belongs to the 105/110 kDa heat shock protein
(HSP105/110) subfamily of the HSP70-like family.
HSP105/110s are believed to function generally as
co-chaperones of HSP70 chaperones, acting as nucleotide
exchange factors (NEFs), to remove ADP from their HSP70
chaperone partners during the ATP hydrolysis cycle.
HSP70 chaperones assist in protein folding and assembly,
and can direct incompetent "client" proteins towards
degradation. Like HSP70 chaperones, HSP105/110s have an
N-terminal nucleotide-binding domain (NBD) and a
C-terminal substrate-binding domain (SBD). For HSP70
chaperones, 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 also regulated by J-domain proteins.
Length = 383
Score = 61.5 bits (149), Expect = 2e-12
Identities = 30/80 (37%), Positives = 46/80 (57%), Gaps = 1/80 (1%)
Query: 7 KVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFDDPEIKK 66
+ + N R TPSV++F R +G A+ Q +T++ NT KR GR F+DP ++K
Sbjct: 23 ETVANEFSDRCTPSVISFGSK-NRTIGVAAKNQQITHANNTVSNFKRFHGRAFNDPFVQK 81
Query: 67 DMKNLSYKIVRASNGDAWVQ 86
+ +NLSY +V NG V+
Sbjct: 82 EKENLSYDLVPLKNGGVGVK 101
>gnl|CDD|235360 PRK05183, hscA, chaperone protein HscA; Provisional.
Length = 616
Score = 58.3 bits (142), Expect = 2e-11
Identities = 28/77 (36%), Positives = 42/77 (54%), Gaps = 3/77 (3%)
Query: 5 QAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFDDPEI 64
QA+V+ + +G PSVV + +DG VG AR A + NT + KR +GR D I
Sbjct: 40 QAEVLPDEQGRVLLPSVVRYLEDG-IEVGYEARANAAQDPKNTISSVKRFMGRSLAD--I 96
Query: 65 KKDMKNLSYKIVRASNG 81
++ +L Y+ V + NG
Sbjct: 97 QQRYPHLPYQFVASENG 113
>gnl|CDD|212679 cd10237, HSPA13-like_NBD, Nucleotide-binding domain of human HSPA13
and similar proteins. Human HSPA13 (also called 70-kDa
heat shock protein 13, STCH, "stress 70 protein
chaperone, microsome-associated, 60kD", "stress 70
protein chaperone, microsome-associated, 60kDa"; the
gene encoding HSPA13 maps to 21q11.1) 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). STCH contains an NBD but lacks an SBD.
STCH may function to regulate cell proliferation and
survival, and modulate the TRAIL-mediated cell death
pathway. The HSPA13 gene is a candidate stomach cancer
susceptibility gene; a mutation in the NBD coding region
of HSPA13 has been identified in stomach cancer cells.
The NBD of HSPA13 interacts with the ubiquitin-like
proteins Chap1 and Chap2, implicating HSPA13 in
regulating cell cycle and cell death events. HSPA13 is
induced by the Ca2+ ionophore A23187.
Length = 417
Score = 56.3 bits (136), Expect = 1e-10
Identities = 29/77 (37%), Positives = 39/77 (50%), Gaps = 1/77 (1%)
Query: 7 KVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFDDPEIKK 66
+I + G ++ PSVVAFT G LVG A QA N NT Y KR IG+ F E++
Sbjct: 45 DIIPDENGRKSIPSVVAFT-PGTVLVGYKAVEQAEHNPQNTIYDAKRFIGKIFTKEELEF 103
Query: 67 DMKNLSYKIVRASNGDA 83
+ +K+ S A
Sbjct: 104 ESDRYRFKVKINSRNGA 120
>gnl|CDD|212687 cd11737, HSPA4_NBD, Nucleotide-binding domain of HSPA4. Human
HSPA4 (also known as 70-kDa heat shock protein 4, APG-2,
HS24/P52, hsp70 RY, and HSPH2; the human HSPA4 gene maps
to 5q31.1) responds to acidic pH stress, is involved in
the radioadaptive response, is required for normal
spermatogenesis and is overexpressed in hepatocellular
carcinoma. It participates in a pathway along with NBS1
(Nijmegen breakage syndrome 1, also known as p85 or
nibrin), heat shock transcription factor 4b (HDF4b), and
HSPA14 (belonging to a different HSP70 subfamily) that
induces tumor migration, invasion, and transformation.
HSPA4 expression in sperm was increased in men with
oligozoospermia, especially in those with varicocele.
HSPA4 belongs to the 105/110 kDa heat shock protein
(HSP105/110) subfamily of the HSP70-like family.
HSP105/110s are believed to function generally as
co-chaperones of HSP70 chaperones, acting as nucleotide
exchange factors (NEFs), to remove ADP from their HSP70
chaperone partners during the ATP hydrolysis cycle.
HSP70 chaperones assist in protein folding and assembly,
and can direct incompetent "client" proteins towards
degradation. Like HSP70 chaperones, HSP105/110s have an
N-terminal nucleotide-binding domain (NBD) and a
C-terminal substrate-binding domain (SBD). For HSP70
chaperones, 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 also regulated by J-domain proteins.
Length = 383
Score = 52.7 bits (126), Expect = 2e-09
Identities = 24/80 (30%), Positives = 42/80 (52%), Gaps = 1/80 (1%)
Query: 7 KVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFDDPEIKK 66
+ I N R TP+ ++F R +G A+ Q ++N+ NT KR GR F DP ++
Sbjct: 23 ETIANEYSDRCTPACISFGPK-NRSIGAAAKSQVISNAKNTVQGFKRFHGRAFSDPFVQA 81
Query: 67 DMKNLSYKIVRASNGDAWVQ 86
+ +L+Y +V+ G ++
Sbjct: 82 EKPSLAYDLVQLPTGSTGIK 101
>gnl|CDD|233673 TIGR01991, HscA, Fe-S protein assembly chaperone HscA. The Heat
Shock Cognate proteins HscA and HscB act together as
chaperones. HscA resembles DnaK but belongs in a
separate clade. The apparent function is to aid
assembly of iron-sulfur cluster proteins. Homologs from
Buchnera and Wolbachia are clearly in the same clade
but are highly derived and score lower than some
examples of DnaK [Protein fate, Protein folding and
stabilization].
Length = 599
Score = 52.7 bits (127), Expect = 2e-09
Identities = 26/78 (33%), Positives = 36/78 (46%), Gaps = 3/78 (3%)
Query: 4 KQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFDDPE 63
+V+ ++EG PSVV + KDG VG A A + NT + KRL+GR +D
Sbjct: 19 GVPEVLPDAEGRVLLPSVVRYLKDGGVEVGKEALAAAAEDPKNTISSVKRLMGRSIEDI- 77
Query: 64 IKKDMKNLSYKIVRASNG 81
K L Y+ V
Sbjct: 78 --KTFSILPYRFVDGPGE 93
>gnl|CDD|212688 cd11738, HSPA4L_NBD, Nucleotide-binding domain of HSPA4L. Human
HSPA4L (also known as 70-kDa heat shock protein 4-like,
APG-1, HSPH3, and OSP94; the human HSPA4L gene maps to
4q28) is expressed ubiquitously and predominantly in the
testis. It is required for normal spermatogenesis and
plays a role in osmotolerance. HSPA4L belongs to the
105/110 kDa heat shock protein (HSP105/110) subfamily of
the HSP70-like family. HSP105/110s are believed to
function generally as co-chaperones of HSP70 chaperones,
acting as nucleotide exchange factors (NEFs), to remove
ADP from their HSP70 chaperone partners during the ATP
hydrolysis cycle. HSP70 chaperones assist in protein
folding and assembly, and can direct incompetent
"client" proteins towards degradation. Like HSP70
chaperones, HSP105/110s have an N-terminal
nucleotide-binding domain (NBD) and a C-terminal
substrate-binding domain (SBD). For HSP70 chaperones,
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 also
regulated by J-domain proteins.
Length = 383
Score = 52.3 bits (125), Expect = 2e-09
Identities = 27/80 (33%), Positives = 42/80 (52%), Gaps = 1/80 (1%)
Query: 7 KVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFDDPEIKK 66
+ I N R TP+ ++ R +G A+ Q VTN NT + K+L GR FDDP ++
Sbjct: 23 ETIANEYSDRCTPACISLGSR-TRAIGNAAKSQIVTNVRNTIHGFKKLHGRSFDDPIVQT 81
Query: 67 DMKNLSYKIVRASNGDAWVQ 86
+ L Y++ + NG V+
Sbjct: 82 ERIRLPYELQKMPNGSVGVK 101
>gnl|CDD|212672 cd10230, HYOU1-like_NBD, Nucleotide-binding domain of human HYOU1
and similar proteins. This subgroup includes human
HYOU1 (also known as human hypoxia up-regulated 1,
GRP170; HSP12A; ORP150; GRP-170; ORP-150; the human
HYOU1 gene maps to11q23.1-q23.3) and Saccharomyces
cerevisiae Lhs1p (also known as Cer1p, SsI1). Mammalian
HYOU1 functions as a nucleotide exchange factor (NEF)
for HSPA5 (alos known as BiP, Grp78 or HspA5) and may
also function as a HSPA5-independent chaperone. S.
cerevisiae Lhs1p, does not have a detectable endogenous
ATPase activity like canonical HSP70s, but functions as
a NEF for Kar2p; it's interaction with Kar2p is
stimulated by nucleotide-binding. In addition, Lhs1p
has a nucleotide-independent holdase activity that
prevents heat-induced aggregation of proteins in vitro.
This subgroup belongs to the 105/110 kDa heat shock
protein (HSP105/110) subfamily of the HSP70-like
family. HSP105/110s are believed to function generally
as co-chaperones of HSP70 chaperones, acting as NEFs,
to remove ADP from their HSP70 chaperone partners
during the ATP hydrolysis cycle. HSP70 chaperones
assist in protein folding and assembly, and can direct
incompetent "client" proteins towards degradation. Like
HSP70 chaperones, HSP105/110s have an N-terminal
nucleotide-binding domain (NBD) and a C-terminal
substrate-binding domain (SBD). For HSP70 chaperones,
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
also regulated by J-domain proteins.
Length = 388
Score = 51.4 bits (124), Expect = 6e-09
Identities = 24/64 (37%), Positives = 32/64 (50%), Gaps = 1/64 (1%)
Query: 3 GKQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFDDP 62
G +++ N E R TPS VAF K GERL G+ A A + K L+G+ DDP
Sbjct: 18 GVPFEIVLNEESKRKTPSAVAF-KGGERLFGSDASSLAARFPQQVYLHLKDLLGKPADDP 76
Query: 63 EIKK 66
+
Sbjct: 77 SVSL 80
>gnl|CDD|212677 cd10235, HscC_like_NBD, Nucleotide-binding domain of Escherichia
coli HscC and similar proteins. This subfamily
includes Escherichia coli HscC (also called heat shock
cognate protein C, Hsc62, or YbeW) and the the putative
DnaK-like protein Escherichia coli ECs0689. 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). Two genes in the vicinity of
the HscC gene code for potential cochaperones: J-domain
containing proteins, DjlB/YbeS and DjlC/YbeV. HscC and
its co-chaperone partners may play a role in the SOS
DNA damage response. HscC does not appear to require a
NEF.
Length = 339
Score = 49.4 bits (119), Expect = 2e-08
Identities = 22/52 (42%), Positives = 33/52 (63%)
Query: 5 QAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIG 56
+A++I N+ G TPSVV+ +DGE LVG AR + +T+ T + KR +G
Sbjct: 19 KARLIPNALGEYLTPSVVSVDEDGEILVGKAARERLITHPDLTAASFKRFMG 70
>gnl|CDD|212678 cd10236, HscA_like_NBD, Nucleotide-binding domain of HscA and
similar proteins. Escherichia coli HscA (heat shock
cognate protein A, also called Hsc66), 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). HscA's partner
J-domain protein is HscB; it does not appear to require
a NEF, and has been shown to be induced by cold-shock.
The HscA-HscB chaperone/co-chaperone pair is involved
in [Fe-S] cluster assembly.
Length = 355
Score = 48.4 bits (116), Expect = 6e-08
Identities = 19/62 (30%), Positives = 33/62 (53%), Gaps = 1/62 (1%)
Query: 1 MEGKQAKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFD 60
+ + K++ + G PSVV + DG VG A + A+++ NT + KRL+G+ +
Sbjct: 17 VLSGKVKILPDENGRVLLPSVVHY-GDGGISVGHDALKLAISDPKNTISSVKRLMGKSIE 75
Query: 61 DP 62
D
Sbjct: 76 DI 77
>gnl|CDD|212682 cd11732, HSP105-110_like_NBD, Nucleotide-binding domain of
105/110 kDa heat shock proteins including HSPA4, HYOU1,
and similar proteins. This subfamily include the human
proteins, HSPA4 (also known as 70-kDa heat shock
protein 4, APG-2, HS24/P52, hsp70 RY, and HSPH2; the
human HSPA4 gene maps to 5q31.1), HSPA4L (also known as
70-kDa heat shock protein 4-like, APG-1, HSPH3, and
OSP94; the human HSPA4L gene maps to 4q28), and HSPH1
(also known as heat shock 105kDa/110kDa protein 1,
HSP105; HSP105A; HSP105B; NY-CO-25; the human HSPH1
gene maps to 13q12.3), HYOU1 (also known as human
hypoxia up-regulated 1, GRP170; HSP12A; ORP150;
GRP-170; ORP-150; the human HYOU1 gene maps
to11q23.1-q23.3), Saccharomyces cerevisiae Sse1p,
Sse2p, and Lhs1p, and a sea urchin sperm receptor. It
belongs to the 105/110 kDa heat shock protein
(HSP105/110) subfamily of the HSP70-like family, and
includes proteins believed to function generally as
co-chaperones of HSP70 chaperones, acting as nucleotide
exchange factors (NEFs), to remove ADP from their HSP70
chaperone partners during the ATP hydrolysis cycle.
HSP70 chaperones assist in protein folding and
assembly, and can direct incompetent "client" proteins
towards degradation. Like HSP70 chaperones, HSP105/110s
have an N-terminal nucleotide-binding domain (NBD) and
a C-terminal substrate-binding domain (SBD). For HSP70
chaperones, 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 also regulated by J-domain proteins.
Length = 377
Score = 43.9 bits (103), Expect = 2e-06
Identities = 21/69 (30%), Positives = 38/69 (55%), Gaps = 1/69 (1%)
Query: 8 VIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFDDPEIKKD 67
++ N +R+TPSVV F R +G + + +N NT KR+IG + P+ +++
Sbjct: 22 IVVNEVSNRSTPSVVGF-GPKNRYLGETGKNKQTSNIKNTVANLKRIIGLDYHHPDFEQE 80
Query: 68 MKNLSYKIV 76
K+ + K+V
Sbjct: 81 SKHFTSKLV 89
>gnl|CDD|212674 cd10232, ScSsz1p_like_NBD, Nucleotide-binding domain of
Saccharmomyces cerevisiae Ssz1pp and similar proteins.
Saccharomyces cerevisiae Ssz1p (also known as
/Pdr13p/YHR064C) 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). Some family members are not
chaperones but rather, function as NEFs for their Hsp70
partners, while other family members function as both
chaperones and NEFs. Ssz1 does not function as a
chaperone; it facilitates the interaction between the
HSP70 Ssb protein and its partner J-domain protein Zuo1
(also known as zuotin) on the ribosome. Ssz1 is found
in a stable heterodimer (called RAC, ribosome
associated complex) with Zuo1. Zuo1 can only stimulate
the ATPase activity of Ssb, when it is in complex with
Ssz1. Ssz1 binds ATP but neither nucleotide-binding,
hydrolysis, or its SBD, is needed for its in vivo
function.
Length = 386
Score = 42.0 bits (99), Expect = 1e-05
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 6 AKVIENSEGSRTTPSVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFDDP 62
A VI N +G R PS +++ + E G A+ Q + N+ NT + L+G+ F +
Sbjct: 22 ADVIANEDGERQIPSAISYHGEQEYH-GNQAKAQLIRNAKNTITNFRDLLGKPFSEI 77
>gnl|CDD|148289 pfam06591, Phage_T4_Ndd, T4-like phage nuclear disruption protein
(Ndd). This family consists of several nuclear
disruption (Ndd) proteins from T4-like phages. Early in
a bacteriophage T4 infection, the phage ndd gene causes
the rapid destruction of the structure of the
Escherichia coli nucleoid. The targets of Ndd action
may be the chromosomal sequences that determine the
structure of the nucleoid.
Length = 154
Score = 28.1 bits (62), Expect = 0.70
Identities = 12/45 (26%), Positives = 22/45 (48%)
Query: 20 SVVAFTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFDDPEI 64
V+A K GE +G+ + ++ F+ +L GR F +P +
Sbjct: 15 EVIATIKGGEWFLGSEVHKDFLSKEGFYFFVKGKLDGRPFSNPCV 59
>gnl|CDD|205177 pfam12987, DUF3871, Domain of unknown function, B. Theta Gene
description (DUF3871). Based on Bacteroides
thetaiotaomicron gene BT_2984, a putative
uncharacterized protein As seen in gene expression
experiments
(http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE2
231). It appears to be upregulated in the presence of
host or other bacterial species vs when in culture.
Length = 323
Score = 27.3 bits (61), Expect = 1.2
Identities = 12/42 (28%), Positives = 21/42 (50%), Gaps = 5/42 (11%)
Query: 24 FTKDGERLVGTPARRQAVTNSANTFYATKRLIGRRFDDPEIK 65
F KD E + + + V +AN+F++ G + PEI+
Sbjct: 47 FAKDNELTISHQSFIETVWEAANSFFS-----GETIETPEIR 83
>gnl|CDD|202663 pfam03484, B5, tRNA synthetase B5 domain. This domain is found
in phenylalanine-tRNA synthetase beta subunits.
Length = 70
Score = 26.0 bits (58), Expect = 1.7
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 52 KRLIGRRFDDPEIKKDMKNLSYKIVRASNGDAW 84
RL+G EIKK +K L +K V S+ D
Sbjct: 12 NRLLGIELSPEEIKKILKRLGFK-VEVSDEDTL 43
>gnl|CDD|220114 pfam09112, N-glycanase_N, Peptide-N-glycosidase F, N terminal.
Members of this family adopt an eight-stranded
antiparallel beta jelly roll configuration, with the
beta strands arranged into two sheets. They are similar
in topology to many viral capsid proteins, as well as
lectins and several glucanases. The domain allows the
protein to bind sugars and catalyzes the complete
removal of N-linked oligosaccharide chains from
glycoproteins.
Length = 145
Score = 26.6 bits (59), Expect = 2.1
Identities = 12/44 (27%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 44 SANTFYATKRLIGRRFDDPEIKKDMKNLSYKIVRASNG---DAW 84
R+I ++ PE KK++ + ++ +SNG DAW
Sbjct: 20 VDEPRLVNGRIILKKVKLPEDKKNVDTVKLEVKLSSNGARCDAW 63
>gnl|CDD|217434 pfam03224, V-ATPase_H_N, V-ATPase subunit H. The yeast
Saccharomyces cerevisiae vacuolar H+-ATPase (V-ATPase)
is a multisubunit complex responsible for acidifying
organelles. It functions as an ATP dependent proton pump
that transports protons across a lipid bilayer. This
domain corresponds to the N terminal domain of the H
subunit of V-ATPase. The N-terminal domain is required
for the activation of the complex whereas the C-terminal
domain is required for coupling ATP hydrolysis to proton
translocation.
Length = 312
Score = 26.1 bits (58), Expect = 3.3
Identities = 5/19 (26%), Positives = 12/19 (63%)
Query: 54 LIGRRFDDPEIKKDMKNLS 72
L R++ D ++ +D++ L
Sbjct: 291 LSERKWSDEDLLEDLEFLK 309
>gnl|CDD|133385 cd01110, HTH_SoxR, Helix-Turn-Helix DNA binding domain of the
SoxR transcription regulator. Helix-turn-helix (HTH)
transcriptional regulator SoxR. The global regulator,
SoxR, up-regulates gene expression of another
transcription activator, SoxS, which directly
stimulates the oxidative stress regulon genes in E.
coli. The soxRS response renders the bacterial cell
resistant to superoxide-generating agents,
macrophage-generated nitric oxide, organic solvents,
and antibiotics. The SoxR proteins share the N-terminal
DNA binding domain with other transcription regulators
of the MerR superfamily that promote transcription by
reconfiguring the unusually long spacer between the -35
and -10 promoter elements. They also harbor a
regulatory C-terminal domain containing an iron-sulfur
center.
Length = 139
Score = 25.2 bits (56), Expect = 5.0
Identities = 14/37 (37%), Positives = 16/37 (43%), Gaps = 8/37 (21%)
Query: 32 VGTPARRQAVTNSANTFYATKRLIG--------RRFD 60
VG A+R V SA FY K LI RR+
Sbjct: 4 VGEVAKRSGVAVSALHFYEQKGLIASWRNAGNQRRYP 40
>gnl|CDD|131005 TIGR01950, SoxR, redox-sensitive transcriptional activator SoxR.
SoxR is a MerR-family homodimeric transcription factor
with a 2Fe-2S cluster in each monomer. The motif
CIGCGCxxxxxC is conserved. Oxidation of the iron-sulfur
cluster activates SoxR. The physiological role in E.
coli is response to oxidative stress. It is activated
by superoxide, singlet oxygen, nitric oxide (NO), and
hydrogen peroxide. In E. coli, SoxR increases
expression of transcription factor SoxS; different
downstream targets may exist in other species [Cellular
processes, Detoxification, Regulatory functions, DNA
interactions].
Length = 142
Score = 25.5 bits (56), Expect = 5.3
Identities = 14/37 (37%), Positives = 17/37 (45%), Gaps = 8/37 (21%)
Query: 32 VGTPARRQAVTNSANTFYATKRLIG--------RRFD 60
VG A+R V SA FY +K LI RR+
Sbjct: 4 VGELAKRSGVAVSALHFYESKGLITSIRNSGNQRRYK 40
>gnl|CDD|237510 PRK13795, PRK13795, hypothetical protein; Provisional.
Length = 636
Score = 25.7 bits (57), Expect = 5.6
Identities = 6/34 (17%), Positives = 13/34 (38%)
Query: 46 NTFYATKRLIGRRFDDPEIKKDMKNLSYKIVRAS 79
+A+ + R D K+ + + RA+
Sbjct: 548 VKVFASGNIWARSEDKEAAASLFKDAARLLRRAA 581
>gnl|CDD|233748 TIGR02149, glgA_Coryne, glycogen synthase, Corynebacterium family.
This model describes Corynebacterium glutamicum GlgA and
closely related proteins in several other species. This
enzyme is required for glycogen biosynthesis and appears
to replace the distantly related TIGR02095 family of
ADP-glucose type glycogen synthase in Corynebacterium
glutamicum, Mycobacterium tuberculosis, Bifidobacterium
longum, and Streptomyces coelicolor [Energy metabolism,
Biosynthesis and degradation of polysaccharides].
Length = 388
Score = 25.6 bits (56), Expect = 5.7
Identities = 14/51 (27%), Positives = 25/51 (49%), Gaps = 8/51 (15%)
Query: 60 DDPEIKKDMKNLSYKIVRASNGDAWVQGKNIRISEVVEVL-------CPNI 103
D PE+ ++++ + R G W+ K + E+VE+L CP+I
Sbjct: 240 DTPEVAEEVRQAVALLDRNRTGIIWIN-KMLPKEELVELLSNAEVFVCPSI 289
>gnl|CDD|224022 COG1097, RRP4, RNA-binding protein Rrp4 and related proteins
(contain S1 domain and KH domain) [Translation,
ribosomal structure and biogenesis].
Length = 239
Score = 25.4 bits (56), Expect = 5.7
Identities = 11/45 (24%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 53 RLIGRRFDDPEIKKDMKNLSYKIVRASNGDAWVQGKNIRISEVVE 97
R+IG++ + + +I+ NG WV G+N + E+
Sbjct: 159 RVIGKKG--SMLNMLKEKTGCEIIVGQNGRIWVDGENESLEELAI 201
>gnl|CDD|238159 cd00256, VATPase_H, VATPase_H, regulatory vacuolar ATP synthase
subunit H (Vma13p); activation component of the
peripheral V1 complex of V-ATPase, a heteromultimeric
enzyme which uses ATP to actively transport protons
into organelles and extracellular compartments. The
topology is that of a superhelical spiral, in part the
geometry is similar to superhelices composed of
armadillo repeat motifs, as found in importins for
example.
Length = 429
Score = 25.4 bits (56), Expect = 6.0
Identities = 6/16 (37%), Positives = 12/16 (75%)
Query: 57 RRFDDPEIKKDMKNLS 72
R++DD ++ D+K L+
Sbjct: 288 RKYDDEDLTDDLKFLT 303
>gnl|CDD|240094 cd04743, NPD_PKS, 2-Nitropropane dioxygenase (NPD)-like domain,
associated with polyketide synthases (PKS). NPD is part
of the nitroalkaneoxidizing enzyme family, that
catalyzes oxidative denitrification of nitroalkanes to
their corresponding carbonyl compounds and nitrites.
NDPs are members of the NAD(P)H-dependent flavin
oxidoreductase family that reduce a range of alternative
electron acceptors. Most use FAD/FMN as a cofactor and
NAD(P)H as electron donor. Some contain 4Fe-4S cluster
to transfer electron from FAD to FMN.
Length = 320
Score = 25.2 bits (55), Expect = 7.3
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 36 ARRQAVTNSANTFYATKRLIGRRFDDP-EIKKDMKNLSYKIVR-ASNG 81
A R V+ + F AT+R + R EIK+ ++ L+ +R AS G
Sbjct: 241 ATRCVVSPFVDEFRATRRRMAREGVSGEEIKERLEALNVGRLRLASKG 288
>gnl|CDD|234955 PRK01433, hscA, chaperone protein HscA; Provisional.
Length = 595
Score = 25.2 bits (55), Expect = 7.4
Identities = 6/26 (23%), Positives = 14/26 (53%)
Query: 3 GKQAKVIENSEGSRTTPSVVAFTKDG 28
++ KVI++ + P+ + FT +
Sbjct: 38 NRKVKVIKSIDDKELIPTTIDFTSNN 63
>gnl|CDD|109979 pfam00944, Peptidase_S3, Alphavirus core protein. Also known as
coat protein C and capsid protein C. This makes the
literature very confusing. Alphaviruses consist of a
nucleoprotein core, a lipid membrane which envelopes the
core, and glycoprotein spikes protruding from the lipid
membrane.
Length = 157
Score = 24.8 bits (54), Expect = 7.9
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 13 EGSRTTPSVVAFTKDGERLVGTP 35
EGSRT SVV + K G + TP
Sbjct: 129 EGSRTALSVVTWNKKGVTIKTTP 151
>gnl|CDD|218676 pfam05649, Peptidase_M13_N, Peptidase family M13. M13 peptidases
are well-studied proteases found in a wide range of
organisms including mammals and bacteria. In mammals
they participate in processes such as cardiovascular
development, blood-pressure regulation, nervous control
of respiration, and regulation of the function of
neuropeptides in the central nervous system. In bacteria
they may be used for digestion of milk.
Length = 380
Score = 25.0 bits (55), Expect = 8.1
Identities = 16/61 (26%), Positives = 25/61 (40%), Gaps = 5/61 (8%)
Query: 23 AFTKDGERLVGT---PARRQAVTNSANTF--YATKRLIGRRFDDPEIKKDMKNLSYKIVR 77
F G+ L GT R + + N A RL ++ PE K D++ + I +
Sbjct: 287 NFEFYGKTLSGTKEQRPRWKRCVSLVNGLLGEALGRLYVEKYFPPEAKADVEEMVKNIKK 346
Query: 78 A 78
A
Sbjct: 347 A 347
>gnl|CDD|139173 PRK12713, flgJ, flagellar rod assembly protein/muramidase FlgJ;
Provisional.
Length = 339
Score = 25.1 bits (54), Expect = 8.2
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 27 DGERLVGTPARRQAVTNSANTFYATKRL 54
D RL+G R +AVT + N A +R+
Sbjct: 277 DYARLIGNSPRYEAVTQAGNEIEAARRI 304
>gnl|CDD|217114 pfam02574, S-methyl_trans, Homocysteine S-methyltransferase. This
is a family of related homocysteine S-methyltransferases
enzymes: 5-methyltetrahydrofolate--homocysteine
S-methyltransferases also known EC:2.1.1.13;
Betaine--homocysteine S-methyltransferase (vitamin B12
dependent), EC:2.1.1.5; and Homocysteine
S-methyltransferase, EC:2.1.1.10.
Length = 303
Score = 25.0 bits (55), Expect = 8.9
Identities = 8/45 (17%), Positives = 17/45 (37%)
Query: 46 NTFYATKRLIGRRFDDPEIKKDMKNLSYKIVRASNGDAWVQGKNI 90
NT+ AT + +++ + +I RA+ + G
Sbjct: 58 NTYQATPIGFADYGLEHLELRELNRRAAEIARAAADEYGNTGDKR 102
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
0.314 0.130 0.365
Gapped
Lambda K H
0.267 0.0695 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,168,396
Number of extensions: 431579
Number of successful extensions: 362
Number of sequences better than 10.0: 1
Number of HSP's gapped: 344
Number of HSP's successfully gapped: 58
Length of query: 103
Length of database: 10,937,602
Length adjustment: 69
Effective length of query: 34
Effective length of database: 7,877,176
Effective search space: 267823984
Effective search space used: 267823984
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (24.3 bits)