RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4650
(381 letters)
>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 = 98.6 bits (246), Expect = 6e-23
Identities = 36/75 (48%), Positives = 49/75 (65%)
Query: 246 KYRLDISDSHRSVAKLRAAAETCMHVLSTLQSSNVFVESLYDGLDFHHNVSRARFESLIG 305
K++ D+ + R++ KL AAE +LSTL S+N FVESLY+G+DF +VSRARFESL
Sbjct: 245 KWKQDVRGNARAMMKLNNAAEVAKQILSTLPSANCFVESLYEGIDFQCSVSRARFESLCS 304
Query: 306 GLLTSFVQPCMHVLS 320
L ++P VL
Sbjct: 305 SLFPKCLEPIEKVLE 319
Score = 38.9 bits (91), Expect = 0.004
Identities = 22/74 (29%), Positives = 35/74 (47%), Gaps = 2/74 (2%)
Query: 1 KSRLISQAKNTIIKNKRALNTELTETDIETIVRETKVDITTNKDMIEYKISYQESSRVKA 60
K I A NTI+KNK+ L ++ + E+ I +Y+I +E + K
Sbjct: 52 KQGRIRNAANTIVKNKQILGRSYSDPFKQKEKTESSCKIIEKDGEPKYEIFTEE--KTKH 109
Query: 61 FNPIQVATLILKTL 74
+P +VA LI K +
Sbjct: 110 VSPKEVAKLIFKKM 123
>gnl|CDD|238121 cd00200, WD40, WD40 domain, found in a number of eukaryotic
proteins that cover a wide variety of functions
including adaptor/regulatory modules in signal
transduction, pre-mRNA processing and cytoskeleton
assembly; typically contains a GH dipeptide 11-24
residues from its N-terminus and the WD dipeptide at its
C-terminus and is 40 residues long, hence the name WD40;
between GH and WD lies a conserved core; serves as a
stable propeller-like platform to which proteins can
bind either stably or reversibly; forms a propeller-like
structure with several blades where each blade is
composed of a four-stranded anti-parallel b-sheet;
instances with few detectable copies are hypothesized to
form larger structures by dimerization; each WD40
sequence repeat forms the first three strands of one
blade and the last strand in the next blade; the last
C-terminal WD40 repeat completes the blade structure of
the first WD40 repeat to create the closed ring
propeller-structure; residues on the top and bottom
surface of the propeller are proposed to coordinate
interactions with other proteins and/or small ligands; 7
copies of the repeat are present in this alignment.
Length = 289
Score = 88.2 bits (219), Expect = 8e-20
Identities = 37/120 (30%), Positives = 62/120 (51%), Gaps = 2/120 (1%)
Query: 71 LKTLYGHEKGVNCVDYYHGGDKPYLISGADDRLVKIWDYQNKTCVQTLEGHGQNISAVCF 130
L+TL GH V V D YL SG+ D+ +++WD + CV+TL GH +S+V F
Sbjct: 44 LRTLKGHTGPVRDVAASA--DGTYLASGSSDKTIRLWDLETGECVRTLTGHTSYVSSVAF 101
Query: 131 HPELPIVITGSEDGSVRVWHSGTHRLEISLTYGLERVWTISSLKGSNNVAIGYDEGSVLL 190
P+ I+ + S D +++VW T + +L + V +++ VA +G++ L
Sbjct: 102 SPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKL 161
Score = 87.8 bits (218), Expect = 1e-19
Identities = 31/79 (39%), Positives = 50/79 (63%), Gaps = 2/79 (2%)
Query: 71 LKTLYGHEKGVNCVDYYHGGDKPYLISGADDRLVKIWDYQNKTCVQTLEGHGQNISAVCF 130
L TL GHE GVN V + G L SG++D +++WD + CVQTL GH +++++ +
Sbjct: 212 LGTLRGHENGVNSVAFSPDGY--LLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAW 269
Query: 131 HPELPIVITGSEDGSVRVW 149
P+ + +GS DG++R+W
Sbjct: 270 SPDGKRLASGSADGTIRIW 288
Score = 87.4 bits (217), Expect = 1e-19
Identities = 37/120 (30%), Positives = 64/120 (53%), Gaps = 2/120 (1%)
Query: 71 LKTLYGHEKGVNCVDYYHGGDKPYLISGADDRLVKIWDYQNKTCVQTLEGHGQNISAVCF 130
+ TL GH VN V + G+K L+S + D +K+WD C+ TL GH +++V F
Sbjct: 170 VATLTGHTGEVNSVAFSPDGEK--LLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVAF 227
Query: 131 HPELPIVITGSEDGSVRVWHSGTHRLEISLTYGLERVWTISSLKGSNNVAIGYDEGSVLL 190
P+ ++ +GSEDG++RVW T +L+ V +++ +A G +G++ +
Sbjct: 228 SPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRI 287
Score = 85.5 bits (212), Expect = 7e-19
Identities = 33/118 (27%), Positives = 61/118 (51%), Gaps = 2/118 (1%)
Query: 71 LKTLYGHEKGVNCVDYYHGGDKPYLISGADDRLVKIWDYQNKTCVQTLEGHGQNISAVCF 130
L TL GH VN V + D ++ S + D +K+WD + CV TL GH +++V F
Sbjct: 128 LTTLRGHTDWVNSVAF--SPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEVNSVAF 185
Query: 131 HPELPIVITGSEDGSVRVWHSGTHRLEISLTYGLERVWTISSLKGSNNVAIGYDEGSV 188
P+ +++ S DG++++W T + +L V +++ +A G ++G++
Sbjct: 186 SPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVAFSPDGYLLASGSEDGTI 243
Score = 77.4 bits (191), Expect = 4e-16
Identities = 32/121 (26%), Positives = 61/121 (50%), Gaps = 2/121 (1%)
Query: 70 ILKTLYGHEKGVNCVDYYHGGDKPYLISGADDRLVKIWDYQNKTCVQTLEGHGQNISAVC 129
++TL GH V+ V + D L S + D+ +K+WD + C+ TL GH +++V
Sbjct: 85 CVRTLTGHTSYVSSVAFSP--DGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVA 142
Query: 130 FHPELPIVITGSEDGSVRVWHSGTHRLEISLTYGLERVWTISSLKGSNNVAIGYDEGSVL 189
F P+ V + S+DG++++W T + +LT V +++ + +G++
Sbjct: 143 FSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIK 202
Query: 190 L 190
L
Sbjct: 203 L 203
Score = 70.8 bits (174), Expect = 7e-14
Identities = 25/79 (31%), Positives = 42/79 (53%), Gaps = 2/79 (2%)
Query: 71 LKTLYGHEKGVNCVDYYHGGDKPYLISGADDRLVKIWDYQNKTCVQTLEGHGQNISAVCF 130
+TL GH GV CV + D L +G+ D +K+WD + ++TL+GH + V
Sbjct: 2 RRTLKGHTGGVTCVAF--SPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAA 59
Query: 131 HPELPIVITGSEDGSVRVW 149
+ + +GS D ++R+W
Sbjct: 60 SADGTYLASGSSDKTIRLW 78
Score = 54.6 bits (132), Expect = 2e-08
Identities = 21/77 (27%), Positives = 39/77 (50%)
Query: 114 CVQTLEGHGQNISAVCFHPELPIVITGSEDGSVRVWHSGTHRLEISLTYGLERVWTISSL 173
+TL+GH ++ V F P+ ++ TGS DG+++VW T L +L V +++
Sbjct: 1 LRRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAAS 60
Query: 174 KGSNNVAIGYDEGSVLL 190
+A G + ++ L
Sbjct: 61 ADGTYLASGSSDKTIRL 77
Score = 42.3 bits (100), Expect = 2e-04
Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 70 ILKTLYGHEKGVNCVDYYHGGDKPYLISGADDRLVKIWD 108
++TL GH V + + D L SG+ D ++IWD
Sbjct: 253 CVQTLSGHTNSVTSLAWS--PDGKRLASGSADGTIRIWD 289
>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 = 72.6 bits (179), Expect = 5e-14
Identities = 27/79 (34%), Positives = 41/79 (51%), Gaps = 3/79 (3%)
Query: 249 LDISDSHRSVAKLRAAAETCMHVLSTLQSSNVFVESLYDGLDFHHNVSRARFESLIGGLL 308
+D+ + R++AKL A VLS + V +ESLYD +DF ++RA FE L L
Sbjct: 261 VDVRTNPRAMAKLLKEANRAKEVLSANSEAPVSIESLYDDIDFKTKITRAEFEELCADLF 320
Query: 309 TSFVQPCMHVLSTLQSSNV 327
V P + L+S+ +
Sbjct: 321 ERAVAP---IKKALESAGL 336
Score = 72.2 bits (178), Expect = 5e-14
Identities = 23/61 (37%), Positives = 32/61 (52%)
Query: 317 HVLSTLQSSNVFVESLYDGLDFHHNVSRARFESLIGGLLTSFVQPIEDVLSRSNITHDQI 376
VLS + V +ESLYD +DF ++RA FE L L V PI+ L + +T I
Sbjct: 282 EVLSANSEAPVSIESLYDDIDFKTKITRAEFEELCADLFERAVAPIKKALESAGLTLKDI 341
Query: 377 N 377
+
Sbjct: 342 D 342
>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 = 68.9 bits (169), Expect = 6e-13
Identities = 26/74 (35%), Positives = 47/74 (63%)
Query: 246 KYRLDISDSHRSVAKLRAAAETCMHVLSTLQSSNVFVESLYDGLDFHHNVSRARFESLIG 305
K++ DIS + R++ +LR A E LS+ +++ ++SL++G+DF+ +++RARFE L
Sbjct: 243 KHKKDISGNKRALRRLRTACERAKRTLSSSTQASIEIDSLFEGIDFYTSITRARFEELCA 302
Query: 306 GLLTSFVQPCMHVL 319
L ++P VL
Sbjct: 303 DLFRGTLEPVEKVL 316
>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 = 63.9 bits (156), Expect = 3e-11
Identities = 28/82 (34%), Positives = 43/82 (52%), Gaps = 3/82 (3%)
Query: 246 KYRLDISDSHRSVAKLRAAAETCMHVLSTLQSSNVFVESLYDGLDFHHNVSRARFESLIG 305
K + D + R++AKLRA +E LS S+ VESL +G+DFH +++R RFE L
Sbjct: 249 KTKTDPRTNARALAKLRAESEITKKTLSASTSATCSVESLAEGIDFHSSINRLRFELLAS 308
Query: 306 GLLTSFVQPCMHVLSTLQSSNV 327
+ F V S + + +
Sbjct: 309 AVFRQFAA---FVTSAVAKAGL 327
Score = 50.5 bits (121), Expect = 7e-07
Identities = 18/59 (30%), Positives = 31/59 (52%)
Query: 318 VLSTLQSSNVFVESLYDGLDFHHNVSRARFESLIGGLLTSFVQPIEDVLSRSNITHDQI 376
LS S+ VESL +G+DFH +++R RFE L + F + ++++ + I
Sbjct: 274 TLSASTSATCSVESLAEGIDFHSSINRLRFELLASAVFRQFAAFVTSAVAKAGLDALDI 332
>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 = 63.1 bits (154), Expect = 6e-11
Identities = 29/84 (34%), Positives = 46/84 (54%), Gaps = 2/84 (2%)
Query: 246 KYRLDISDSHRSVAKLRAAAETCMHVLSTLQSSNVFVESLYDGLDFHHNVSRARFESLIG 305
K+ DIS R++ KLR E LS+ + + +ESL+DG DF ++RA+FE L
Sbjct: 244 KHGKDISKDKRALQKLRREVEKAKRALSSQHQTRIEIESLFDGEDFSETLTRAKFEELNM 303
Query: 306 GLLTSFVQPCMHVL--STLQSSNV 327
L ++P VL + L+ S++
Sbjct: 304 DLFKKTLKPVKKVLEDADLKKSDI 327
Score = 50.0 bits (120), Expect = 8e-07
Identities = 19/61 (31%), Positives = 35/61 (57%)
Query: 317 HVLSTLQSSNVFVESLYDGLDFHHNVSRARFESLIGGLLTSFVQPIEDVLSRSNITHDQI 376
LS+ + + +ESL+DG DF ++RA+FE L L ++P++ VL +++ I
Sbjct: 268 RALSSQHQTRIEIESLFDGEDFSETLTRAKFEELNMDLFKKTLKPVKKVLEDADLKKSDI 327
Query: 377 N 377
+
Sbjct: 328 D 328
>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 = 59.9 bits (146), Expect = 6e-10
Identities = 21/74 (28%), Positives = 35/74 (47%)
Query: 246 KYRLDISDSHRSVAKLRAAAETCMHVLSTLQSSNVFVESLYDGLDFHHNVSRARFESLIG 305
K +D+ R++ +L+ AAE LS+ + + + + L G D ++R FE LI
Sbjct: 240 KGGIDLRLDPRALRRLKEAAEKAKIALSSSEEATITLPGLGSGGDLEVELTREEFEELIR 299
Query: 306 GLLTSFVQPCMHVL 319
LL + VL
Sbjct: 300 PLLERTIDLVERVL 313
Score = 52.2 bits (126), Expect = 2e-07
Identities = 16/60 (26%), Positives = 30/60 (50%)
Query: 319 LSTLQSSNVFVESLYDGLDFHHNVSRARFESLIGGLLTSFVQPIEDVLSRSNITHDQINK 378
LS+ + + + + L G D ++R FE LI LL + +E VL+ + + + I+
Sbjct: 266 LSSSEEATITLPGLGSGGDLEVELTREEFEELIRPLLERTIDLVERVLADAGLKPEDIDA 325
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 57.8 bits (138), Expect = 4e-09
Identities = 33/119 (27%), Positives = 60/119 (50%), Gaps = 8/119 (6%)
Query: 69 LILKTLYGHEKG-VNCVDYYHGGDKPYLISGADDRLVKIWDYQN-KTCVQTLEGHGQNIS 126
L+ TL GH V+ D L SG+ D +++WD ++ + ++TL GH ++
Sbjct: 233 LLRSTLSGHSDSVVSSFSP----DGSLLASGSSDGTIRLWDLRSSSSLLRTLSGHSSSVL 288
Query: 127 AVCFHPELPIVITGSEDGSVRVWHSGTHRL--EISLTYGLERVWTISSLKGSNNVAIGY 183
+V F P+ ++ +GS DG+VR+W T +L ++L V ++S + + G
Sbjct: 289 SVAFSPDGKLLASGSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGG 347
Score = 55.5 bits (132), Expect = 2e-08
Identities = 33/122 (27%), Positives = 60/122 (49%), Gaps = 2/122 (1%)
Query: 70 ILKTLYGHEKGVNCVDYYHGGDKPYLISGADDRLVKIWDYQNKTCVQTLEGHGQNISAVC 129
+++TL GH + V + + G + D +K+WD + + TL GH +S++
Sbjct: 147 LIRTLEGHSESVTSLAFSPDGKL-LASGSSLDGTIKLWDLRTGKPLSTLAGHTDPVSSLA 205
Query: 130 FHPELPIVI-TGSEDGSVRVWHSGTHRLEISLTYGLERVWTISSLKGSNNVAIGYDEGSV 188
F P+ ++I +GS DG++R+W T +L S G S + +A G +G++
Sbjct: 206 FSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHSDSVVSSFSPDGSLLASGSSDGTI 265
Query: 189 LL 190
L
Sbjct: 266 RL 267
Score = 54.3 bits (129), Expect = 5e-08
Identities = 40/145 (27%), Positives = 70/145 (48%), Gaps = 3/145 (2%)
Query: 71 LKTLYGHEKGVNCVDYYHGGDKPYLISGADDRLVKIWDYQNKTCVQTLEGHGQNISAVCF 130
TL GHE V+ + + G + G+DD +++WD + ++TLEGH N+ +V F
Sbjct: 321 SLTLKGHEGPVSSLSFSPDGSL-LVSGGSDDGTIRLWDLRTGKPLKTLEGHS-NVLSVSF 378
Query: 131 HPELPIVITGSEDGSVRVWHSGTHRLEISLTYGLERVWTISSLKGSNNVAIGYDEGSV-L 189
P+ +V +GS DG+VR+W T L +L RV ++ ++A G + ++ L
Sbjct: 379 SPDGRVVSSGSTDGTVRLWDLSTGSLLRNLDGHTSRVTSLDFSPDGKSLASGSSDNTIRL 438
Query: 190 LKVGREEPAVSMDVNGCKIIWARHS 214
+ +VS +G +
Sbjct: 439 WDLKTSLKSVSFSPDGKVLASKSSD 463
Score = 47.4 bits (111), Expect = 7e-06
Identities = 26/159 (16%), Positives = 61/159 (38%), Gaps = 5/159 (3%)
Query: 2 SRLISQAKNTIIKNKRALNTELTETDIETIVRETKVDITTNKDMIEYKISYQESSRVKAF 61
L S + + ++ +L + ++ + D + ++ +
Sbjct: 297 KLLASGSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLW 356
Query: 62 NPIQVATLILKTLYGHEKGVNCVDYYHGGDKPYLISGADDRLVKIWDYQNKTCVQTLEGH 121
+ + T V V + D + SG+ D V++WD + ++ L+GH
Sbjct: 357 D---LRTGKPLKTLEGHSNVLSVSF--SPDGRVVSSGSTDGTVRLWDLSTGSLLRNLDGH 411
Query: 122 GQNISAVCFHPELPIVITGSEDGSVRVWHSGTHRLEISL 160
++++ F P+ + +GS D ++R+W T +S
Sbjct: 412 TSRVTSLDFSPDGKSLASGSSDNTIRLWDLKTSLKSVSF 450
Score = 44.7 bits (104), Expect = 5e-05
Identities = 25/96 (26%), Positives = 53/96 (55%), Gaps = 4/96 (4%)
Query: 70 ILKTLYG-HEKGVNCVDYYHGGDKPYLISGAD-DRLVKIWDYQNKT-CVQTLEGHGQNIS 126
++K+L G H+ V+ + L++ + D VK+WD ++TLEGH ++++
Sbjct: 100 LIKSLEGLHDSSVSKLALSSPDGNSILLASSSLDGTVKLWDLSTPGKLIRTLEGHSESVT 159
Query: 127 AVCFHPELPIVITGSE-DGSVRVWHSGTHRLEISLT 161
++ F P+ ++ +GS DG++++W T + +L
Sbjct: 160 SLAFSPDGKLLASGSSLDGTIKLWDLRTGKPLSTLA 195
Score = 41.2 bits (95), Expect = 7e-04
Identities = 33/157 (21%), Positives = 63/157 (40%), Gaps = 13/157 (8%)
Query: 27 DIETIVRETKVDITTNKDMIEYKISYQESSRVKAFNPIQVATLILKTLYGHEKGVNCVDY 86
E + + + + S + + L L GHE + + +
Sbjct: 18 KSELGPSLNSLSLLSLGSSESGILLLALLSDS----LVSLPDLSSLLLRGHEDSITSIAF 73
Query: 87 YHGGDKPYLISGADDRLVKIWDYQN-KTCVQTLEG-HGQNISAVCF-HPELPIVIT--GS 141
D L+SG+ D +K+WD N + +++LEG H ++S + P+ ++ S
Sbjct: 74 --SPDGELLLSGSSDGTIKLWDLDNGEKLIKSLEGLHDSSVSKLALSSPDGNSILLASSS 131
Query: 142 EDGSVRVWHSGTHRLEISLTYGLERVWTISSLKGSNN 178
DG+V++W T I G +++SL S +
Sbjct: 132 LDGTVKLWDLSTPGKLIRTLEGHS--ESVTSLAFSPD 166
>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 = 57.1 bits (139), Expect = 5e-09
Identities = 22/88 (25%), Positives = 39/88 (44%), Gaps = 3/88 (3%)
Query: 246 KYRLDISDSHRSVAKLRAAAETCMHVLSTLQSSNVFVESLYDGLDFHHNVSRARFESLIG 305
KY++D+ + ++ +L AA E VLS + + +E L + D + R FE L
Sbjct: 249 KYKIDVLSNPKARLRLLAACEKLKKVLSANTEAPLNIECLMEDKDVSGKIKREEFEELCA 308
Query: 306 GLLTSFVQPCMHVLSTLQSSNVFVESLY 333
LL +P L + + E ++
Sbjct: 309 PLLERVEEPLE---KALAEAGLTKEDIH 333
Score = 47.9 bits (115), Expect = 5e-06
Identities = 17/59 (28%), Positives = 28/59 (47%)
Query: 318 VLSTLQSSNVFVESLYDGLDFHHNVSRARFESLIGGLLTSFVQPIEDVLSRSNITHDQI 376
VLS + + +E L + D + R FE L LL +P+E L+ + +T + I
Sbjct: 274 VLSANTEAPLNIECLMEDKDVSGKIKREEFEELCAPLLERVEEPLEKALAEAGLTKEDI 332
Score = 29.0 bits (66), Expect = 4.5
Identities = 18/75 (24%), Positives = 37/75 (49%), Gaps = 3/75 (4%)
Query: 1 KSRLISQAKNTIIKNKRALNTELTETDIETIVRETKVDITTNKD-MIEYKISYQESSRVK 59
K++ IS KNT+ KR + + + +++ ++ + D + K++Y +V
Sbjct: 52 KNQAISNFKNTVRNFKRLIGRKFDDPEVQKELKFLPFKVVELPDGKVGIKVNYLGEEKV- 110
Query: 60 AFNPIQVATLILKTL 74
F+P QV ++L L
Sbjct: 111 -FSPEQVLAMLLTKL 124
>gnl|CDD|197651 smart00320, WD40, WD40 repeats. Note that these repeats are
permuted with respect to the structural repeats (blades)
of the beta propeller domain.
Length = 40
Score = 50.8 bits (122), Expect = 7e-09
Identities = 12/40 (30%), Positives = 27/40 (67%)
Query: 111 NKTCVQTLEGHGQNISAVCFHPELPIVITGSEDGSVRVWH 150
+ ++TL+GH +++V F P+ + +GS+DG++++W
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 41.5 bits (98), Expect = 1e-05
Identities = 18/38 (47%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 71 LKTLYGHEKGVNCVDYYHGGDKPYLISGADDRLVKIWD 108
LKTL GH V V + D YL SG+DD +K+WD
Sbjct: 5 LKTLKGHTGPVTSVAFSP--DGKYLASGSDDGTIKLWD 40
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 50.0 bits (120), Expect = 1e-08
Identities = 15/39 (38%), Positives = 27/39 (69%)
Query: 112 KTCVQTLEGHGQNISAVCFHPELPIVITGSEDGSVRVWH 150
++TL+GH +++V F P+ ++ +GS+DG+VRVW
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 43.1 bits (102), Expect = 4e-06
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 70 ILKTLYGHEKGVNCVDYYHGGDKPYLISGADDRLVKIWD 108
+L+TL GH V V + D L SG+DD V++WD
Sbjct: 3 LLRTLKGHTGPVTSVAFSP--DGNLLASGSDDGTVRVWD 39
>gnl|CDD|240227 PTZ00009, PTZ00009, heat shock 70 kDa protein; Provisional.
Length = 653
Score = 56.3 bits (136), Expect = 1e-08
Identities = 24/70 (34%), Positives = 42/70 (60%)
Query: 250 DISDSHRSVAKLRAAAETCMHVLSTLQSSNVFVESLYDGLDFHHNVSRARFESLIGGLLT 309
D+S + R++ +LR E LS+ + + ++SL++G+D++ +SRARFE L G
Sbjct: 254 DLSSNQRALRRLRTQCERAKRTLSSSTQATIEIDSLFEGIDYNVTISRARFEELCGDYFR 313
Query: 310 SFVQPCMHVL 319
+ +QP VL
Sbjct: 314 NTLQPVEKVL 323
Score = 47.9 bits (114), Expect = 6e-06
Identities = 19/54 (35%), Positives = 35/54 (64%)
Query: 318 VLSTLQSSNVFVESLYDGLDFHHNVSRARFESLIGGLLTSFVQPIEDVLSRSNI 371
LS+ + + ++SL++G+D++ +SRARFE L G + +QP+E VL + +
Sbjct: 275 TLSSSTQATIEIDSLFEGIDYNVTISRARFEELCGDYFRNTLQPVEKVLKDAGM 328
>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 = 54.5 bits (132), Expect = 5e-08
Identities = 25/77 (32%), Positives = 39/77 (50%), Gaps = 2/77 (2%)
Query: 246 KYRLDISDSHRSVAKLRAAAETCMHVLSTLQSS-NVFVESLY-DGLDFHHNVSRARFESL 303
KY +D+S R++ +LR AAE LS+ Q+ N+ + DG D ++RA+FE L
Sbjct: 241 KYGIDLSKDPRALQRLREAAEKAKIELSSNQTEINLPFITAMADGKDVSGTLTRAKFEEL 300
Query: 304 IGGLLTSFVQPCMHVLS 320
L ++P L
Sbjct: 301 CADLFERTLEPVEKALK 317
Score = 41.1 bits (97), Expect = 8e-04
Identities = 17/63 (26%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 318 VLSTLQSS-NVFVESLY-DGLDFHHNVSRARFESLIGGLLTSFVQPIEDVLSRSNITHDQ 375
LS+ Q+ N+ + DG D ++RA+FE L L ++P+E L + ++ +
Sbjct: 266 ELSSNQTEINLPFITAMADGKDVSGTLTRAKFEELCADLFERTLEPVEKALKDAKLSKSE 325
Query: 376 INK 378
I++
Sbjct: 326 IDE 328
>gnl|CDD|223520 COG0443, DnaK, Molecular chaperone [Posttranslational modification,
protein turnover, chaperones].
Length = 579
Score = 52.0 bits (125), Expect = 3e-07
Identities = 21/74 (28%), Positives = 38/74 (51%)
Query: 246 KYRLDISDSHRSVAKLRAAAETCMHVLSTLQSSNVFVESLYDGLDFHHNVSRARFESLIG 305
K +D+ ++ +LR AAE LS+ +++ + S+ +D ++RA+FE LI
Sbjct: 227 KGGIDLRSDKAALQRLREAAEKAKIELSSATQTSINLPSIGGDIDLLKELTRAKFEELIL 286
Query: 306 GLLTSFVQPCMHVL 319
LL ++P L
Sbjct: 287 DLLERTIEPVEQAL 300
Score = 47.0 bits (112), Expect = 1e-05
Identities = 16/60 (26%), Positives = 32/60 (53%)
Query: 318 VLSTLQSSNVFVESLYDGLDFHHNVSRARFESLIGGLLTSFVQPIEDVLSRSNITHDQIN 377
LS+ +++ + S+ +D ++RA+FE LI LL ++P+E L + + I+
Sbjct: 252 ELSSATQTSINLPSIGGDIDLLKELTRAKFEELILDLLERTIEPVEQALKDAGLEKSDID 311
>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 = 45.0 bits (106), Expect = 4e-05
Identities = 23/80 (28%), Positives = 41/80 (51%)
Query: 246 KYRLDISDSHRSVAKLRAAAETCMHVLSTLQSSNVFVESLYDGLDFHHNVSRARFESLIG 305
KY++DI ++ ++ ++ AAE VLS ++ VES+ + +D +SR E L+
Sbjct: 248 KYKIDIRENPKAYNRILTAAEKLKKVLSANTNAPFSVESVMNDVDVSSQLSREELEELVK 307
Query: 306 GLLTSFVQPCMHVLSTLQSS 325
LL +P L+ + S
Sbjct: 308 PLLERVTEPVTKALAQAKLS 327
Score = 36.5 bits (84), Expect = 0.018
Identities = 15/60 (25%), Positives = 33/60 (55%)
Query: 318 VLSTLQSSNVFVESLYDGLDFHHNVSRARFESLIGGLLTSFVQPIEDVLSRSNITHDQIN 377
VLS ++ VES+ + +D +SR E L+ LL +P+ L+++ ++ ++++
Sbjct: 273 VLSANTNAPFSVESVMNDVDVSSQLSREELEELVKPLLERVTEPVTKALAQAKLSAEEVD 332
>gnl|CDD|212673 cd10231, YegD_like, Escherichia coli YegD, a putative chaperone
protein, and related proteins. This bacterial subfamily
includes the uncharacterized Escherichia coli YegD. 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. YegD lacks the SBD. HSP70
chaperone activity is regulated by various
co-chaperones: J-domain proteins and nucleotide exchange
factors (NEFs). Some family members are not chaperones
but instead, function as NEFs for their Hsp70 partners,
other family members function as both chaperones and
NEFs.
Length = 415
Score = 39.1 bits (92), Expect = 0.003
Identities = 12/50 (24%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 333 YDGLDFHHNVSRARFESLIGGLLTSFVQPIEDVLSRSNITHDQINK-FTT 381
+ + V+RA FE I L +++ L+++ ++ D I++ F T
Sbjct: 326 FVEVGLEAPVTRAEFEGAIAPDLERIEAAVDEALAQAGVSPDAIDRVFLT 375
>gnl|CDD|173611 PTZ00421, PTZ00421, coronin; Provisional.
Length = 493
Score = 37.2 bits (86), Expect = 0.012
Identities = 19/75 (25%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 74 LYGHEKGVNCVDYYHGGDKPYLISGADDRLVKIWDYQNKTCVQTLEGHGQNISAVCFHPE 133
L GH K V V + H L S D +V +WD + V+ ++ H I+++ ++ +
Sbjct: 121 LQGHTKKVGIVSF-HPSAMNVLASAGADMVVNVWDVERGKAVEVIKCHSDQITSLEWNLD 179
Query: 134 LPIVITGSEDGSVRV 148
++ T S+D + +
Sbjct: 180 GSLLCTTSKDKKLNI 194
>gnl|CDD|140213 PTZ00186, PTZ00186, heat shock 70 kDa precursor protein;
Provisional.
Length = 657
Score = 36.6 bits (84), Expect = 0.023
Identities = 23/87 (26%), Positives = 44/87 (50%), Gaps = 8/87 (9%)
Query: 237 LTLSVHVTIKYR----LDISDSHRSVAKLRAAAETCMHVLSTLQSSNV---FVESLYDGL 289
L LS ++ ++R +D+S ++ ++R AAE LS+ + V F+ + DG
Sbjct: 254 LALSDYILEEFRKTSGIDLSKERMALQRVREAAEKAKCELSSAMETEVNLPFITANADGA 313
Query: 290 D-FHHNVSRARFESLIGGLLTSFVQPC 315
++SR++FE + L+ + PC
Sbjct: 314 QHIQMHISRSKFEGITQRLIERSIAPC 340
>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 = 35.8 bits (83), Expect = 0.032
Identities = 22/77 (28%), Positives = 43/77 (55%), Gaps = 6/77 (7%)
Query: 249 LDISDSHRSVAKLRAAAETCMHVLSTLQSSNV---FVESLYDGLDFHHNV--SRARFESL 303
+D++ + ++ +LR AAE LS+ +++ ++ + G H N+ +RA+FESL
Sbjct: 245 IDLTKDNMALQRLREAAEKAKIELSSSLQTDINLPYITADASGPK-HLNMKLTRAKFESL 303
Query: 304 IGGLLTSFVQPCMHVLS 320
+G L+ ++PC L
Sbjct: 304 VGDLIKRTIEPCKKALK 320
Score = 32.0 bits (73), Expect = 0.55
Identities = 11/37 (29%), Positives = 22/37 (59%)
Query: 341 NVSRARFESLIGGLLTSFVQPIEDVLSRSNITHDQIN 377
++RA+FESL+G L+ ++P + L + ++ I
Sbjct: 294 KLTRAKFESLVGDLIKRTIEPCKKALKDAGVSKSDIG 330
>gnl|CDD|129820 TIGR00737, nifR3_yhdG, putative TIM-barrel protein, nifR3 family.
This model represents one branch of COG0042 (Predicted
TIM-barrel enzymes, possibly dehydrogenases, nifR3
family). This branch includes NifR3 itself, from
Rhodobacter capsulatus. It excludes a broadly
distributed but more sparsely populated subfamily that
contains sll0926 from Synechocystis PCC6803, HI0634 from
Haemophilus influenzae, and BB0225 from Borrelia
burgdorferi. It also excludes a shorter and more distant
archaeal subfamily.The function of nifR3, a member of
this family, is unknown, but it is found in an operon
with nitrogen-sensing two component regulators in
Rhodobacter capsulatus.Members of this family show a
distant relationship to alpha/beta (TIM) barrel enzymes
such as dihydroorotate dehydrogenase and glycolate
oxidase [Unknown function, General].
Length = 319
Score = 35.8 bits (83), Expect = 0.032
Identities = 12/44 (27%), Positives = 21/44 (47%)
Query: 225 PEVFENITAGVVLTLSVHVTIKYRLDISDSHRSVAKLRAAAETC 268
P++ I VV + + VT+K R+ D+H + + AE
Sbjct: 116 PDLIGKIVKAVVDAVDIPVTVKIRIGWDDAHINAVEAARIAEDA 159
>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 = 35.6 bits (83), Expect = 0.032
Identities = 11/44 (25%), Positives = 19/44 (43%)
Query: 333 YDGLDFHHNVSRARFESLIGGLLTSFVQPIEDVLSRSNITHDQI 376
G DF ++R FE LI L+ + + L + ++ I
Sbjct: 266 VRGQDFKCTITREEFEKLIDPLVKKTLNICKQALRDAGLSVKDI 309
Score = 31.0 bits (71), Expect = 1.0
Identities = 21/79 (26%), Positives = 28/79 (35%), Gaps = 6/79 (7%)
Query: 242 HVTIKYRLDISDSHRSVAKLRAAAETCMHVLSTLQSSNVFVESLYDGLDFHHNVSRARFE 301
+ KY L S A+L A LS + V G DF ++R FE
Sbjct: 228 LLLKKYGLKSLISDEDQAELLLIARKAKEALSGAEEVEV------RGQDFKCTITREEFE 281
Query: 302 SLIGGLLTSFVQPCMHVLS 320
LI L+ + C L
Sbjct: 282 KLIDPLVKKTLNICKQALR 300
>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 = 35.4 bits (82), Expect = 0.048
Identities = 9/38 (23%), Positives = 20/38 (52%)
Query: 341 NVSRARFESLIGGLLTSFVQPIEDVLSRSNITHDQINK 378
++RA+FE L L+ +P+ L + ++ I++
Sbjct: 290 TLTRAKFEELTADLVERTKEPVRQALKDAGLSASDIDE 327
Score = 33.1 bits (76), Expect = 0.25
Identities = 19/79 (24%), Positives = 37/79 (46%), Gaps = 4/79 (5%)
Query: 246 KYRLDISDSHRSVAKLRAAAETCMHVLSTLQSSNV---FVESLYDG-LDFHHNVSRARFE 301
+ +D+S ++ +L+ AAE LS++ S+ + F+ + G ++RA+FE
Sbjct: 238 EEGIDLSKDKMALQRLKEAAEKAKIELSSVLSTEINLPFITADASGPKHLEMTLTRAKFE 297
Query: 302 SLIGGLLTSFVQPCMHVLS 320
L L+ +P L
Sbjct: 298 ELTADLVERTKEPVRQALK 316
>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 = 35.2 bits (81), Expect = 0.051
Identities = 17/74 (22%), Positives = 36/74 (48%)
Query: 246 KYRLDISDSHRSVAKLRAAAETCMHVLSTLQSSNVFVESLYDGLDFHHNVSRARFESLIG 305
KY++D++ + +++ +++ AAE LS+ + S + + L ++R FE L
Sbjct: 242 KYKIDLTRNKKAIQRIKEAAEKAKIELSSSEESVIELPYLDGPKHLRITITRREFEQLRK 301
Query: 306 GLLTSFVQPCMHVL 319
+ + PC L
Sbjct: 302 SICKRTIYPCKQCL 315
>gnl|CDD|234715 PRK00290, dnaK, molecular chaperone DnaK; Provisional.
Length = 627
Score = 35.5 bits (83), Expect = 0.053
Identities = 9/38 (23%), Positives = 21/38 (55%)
Query: 341 NVSRARFESLIGGLLTSFVQPIEDVLSRSNITHDQINK 378
++RA+FE L L+ ++P + L + ++ I++
Sbjct: 292 KLTRAKFEELTEDLVERTIEPCKQALKDAGLSVSDIDE 329
Score = 28.9 bits (66), Expect = 5.1
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 8/66 (12%)
Query: 261 LRAAAETCMHVLSTLQSSNV---FVESLYDG---LDFHHNVSRARFESLIGGLLTSFVQP 314
L+ AAE LS+ Q + + F+ + G L+ ++RA+FE L L+ ++P
Sbjct: 255 LKEAAEKAKIELSSAQQTEINLPFITADASGPKHLEI--KLTRAKFEELTEDLVERTIEP 312
Query: 315 CMHVLS 320
C L
Sbjct: 313 CKQALK 318
>gnl|CDD|177776 PLN00181, PLN00181, protein SPA1-RELATED; Provisional.
Length = 793
Score = 35.1 bits (80), Expect = 0.073
Identities = 27/88 (30%), Positives = 40/88 (45%), Gaps = 9/88 (10%)
Query: 69 LILKTLYGHEKGVNCVDYYHGGDKPYLISGADDRLVKIWDYQ------NKTCVQTLEGHG 122
L L T+ GH K V+ V + D L+S + D +K+WD N+T + + GH
Sbjct: 652 LPLCTMIGHSKTVSYVRFV---DSSTLVSSSTDNTLKLWDLSMSISGINETPLHSFMGHT 708
Query: 123 QNISAVCFHPELPIVITGSEDGSVRVWH 150
+ V + TGSE V V+H
Sbjct: 709 NVKNFVGLSVSDGYIATGSETNEVFVYH 736
Score = 30.4 bits (68), Expect = 2.0
Identities = 15/59 (25%), Positives = 33/59 (55%), Gaps = 1/59 (1%)
Query: 92 KPYLISGADDRLVKIWDYQNKTCVQTLEGHGQNISAVCFHPELPIVI-TGSEDGSVRVW 149
K + S + +V++WD V ++ H + + ++ + P ++ +GS+DGSV++W
Sbjct: 545 KSQVASSNFEGVVQVWDVARSQLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLW 603
Score = 28.9 bits (64), Expect = 6.0
Identities = 20/68 (29%), Positives = 34/68 (50%), Gaps = 2/68 (2%)
Query: 125 ISAVCFHPELPIVITGSE-DGSVRVWHSGTHRLEISLTYGLERVWTIS-SLKGSNNVAIG 182
+S +C++ + + S +G V+VW +L + +RVW+I S +A G
Sbjct: 535 LSGICWNSYIKSQVASSNFEGVVQVWDVARSQLVTEMKEHEKRVWSIDYSSADPTLLASG 594
Query: 183 YDEGSVLL 190
D+GSV L
Sbjct: 595 SDDGSVKL 602
>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 = 34.6 bits (79), Expect = 0.081
Identities = 26/120 (21%), Positives = 52/120 (43%), Gaps = 9/120 (7%)
Query: 218 QANLKTMPEVFE------NITAGVVLTLSVHVTIKYRLDISDSHRSVAKLRAAAETCMHV 271
+ LK + F+ N +V KY++++ ++ R++ +L E +
Sbjct: 216 KGKLKVLATTFDPYLGGRNFDEALVDYFCDEFKTKYKINVKENSRALLRLYQECEKLKKL 275
Query: 272 LSTLQSS-NVFVESLYDGLDFHHNVSRARFESLIGGLLTSFVQPCMHVL--STLQSSNVF 328
+S S + +E + LD ++RA+FE L LL P V+ + LQ +++
Sbjct: 276 MSANASDLPLNIECFMNDLDVSSKMNRAQFEQLCASLLARVEPPLKAVMEQANLQREDIY 335
Score = 31.5 bits (71), Expect = 0.62
Identities = 21/74 (28%), Positives = 35/74 (47%), Gaps = 6/74 (8%)
Query: 308 LTSFVQPCMHVLSTLQSSN-----VFVESLYDGLDFHHNVSRARFESLIGGLLTSFVQPI 362
L Q C L L S+N + +E + LD ++RA+FE L LL P+
Sbjct: 262 LLRLYQEC-EKLKKLMSANASDLPLNIECFMNDLDVSSKMNRAQFEQLCASLLARVEPPL 320
Query: 363 EDVLSRSNITHDQI 376
+ V+ ++N+ + I
Sbjct: 321 KAVMEQANLQREDI 334
>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 = 34.6 bits (80), Expect = 0.093
Identities = 14/53 (26%), Positives = 26/53 (49%)
Query: 326 NVFVESLYDGLDFHHNVSRARFESLIGGLLTSFVQPIEDVLSRSNITHDQINK 378
+V V+ DG DF ++R FE+LI L+ + L + ++ ++I
Sbjct: 263 SVEVDFTLDGKDFKGKLTRDEFEALIQPLVQKTLSICRRALRDAGLSVEEIKG 315
Score = 31.9 bits (73), Expect = 0.71
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 5/75 (6%)
Query: 258 VAKLRAAAETCMHVLSTLQSSNVFVESLYDGLDFHHNVSRARFESLIGGLLTSFVQPCMH 317
L AA L+ +S V V+ DG DF ++R FE+LI L+ + C
Sbjct: 244 QRLLLQAARAAKEALTDAES--VEVDFTLDGKDFKGKLTRDEFEALIQPLVQKTLSICR- 300
Query: 318 VLSTLQSSNVFVESL 332
L+ + + VE +
Sbjct: 301 --RALRDAGLSVEEI 313
>gnl|CDD|184038 PRK13410, PRK13410, molecular chaperone DnaK; Provisional.
Length = 668
Score = 34.2 bits (79), Expect = 0.13
Identities = 16/63 (25%), Positives = 33/63 (52%), Gaps = 4/63 (6%)
Query: 319 LSTLQSSNV---FVESLYDG-LDFHHNVSRARFESLIGGLLTSFVQPIEDVLSRSNITHD 374
LS + +++ F+ + DG + R +FESL G LL ++P++ L + ++ +
Sbjct: 268 LSGVSVTDISLPFITATEDGPKHIETRLDRKQFESLCGDLLDRLLRPVKRALKDAGLSPE 327
Query: 375 QIN 377
I+
Sbjct: 328 DID 330
>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 = 32.9 bits (76), Expect = 0.24
Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 3/70 (4%)
Query: 246 KYRLDISDSHRSV-AKLRAAAETCMHVLSTLQSSNVFVESLYDGLDFHHNVSRARFESLI 304
K+ LD S A+L AAE LS + + + V +G + + ++R FE +
Sbjct: 211 KHGLDFEKLDPSELARLLRAAERAKRALSDQEEAEMSVR--IEGEELEYTLTREEFEEIC 268
Query: 305 GGLLTSFVQP 314
LL QP
Sbjct: 269 QPLLERLRQP 278
Score = 27.9 bits (63), Expect = 8.4
Identities = 12/45 (26%), Positives = 21/45 (46%)
Query: 333 YDGLDFHHNVSRARFESLIGGLLTSFVQPIEDVLSRSNITHDQIN 377
+G + + ++R FE + LL QPIE L + + I+
Sbjct: 250 IEGEELEYTLTREEFEEICQPLLERLRQPIERALRDARLKPSDID 294
>gnl|CDD|184039 PRK13411, PRK13411, molecular chaperone DnaK; Provisional.
Length = 653
Score = 32.8 bits (75), Expect = 0.28
Identities = 9/36 (25%), Positives = 22/36 (61%)
Query: 343 SRARFESLIGGLLTSFVQPIEDVLSRSNITHDQINK 378
+RA+FE L L+ + ++P++ L + + + I++
Sbjct: 295 TRAKFEELTKDLVEATIEPMQQALKDAGLKPEDIDR 330
Score = 30.5 bits (69), Expect = 1.8
Identities = 19/72 (26%), Positives = 39/72 (54%), Gaps = 8/72 (11%)
Query: 249 LDISDSHRSVAKLRAAAETCMHVLSTLQSSNV---FVESLYDGLDFHH---NVSRARFES 302
+D+S ++ +LR AAE LS++ ++++ F+ + D H ++RA+FE
Sbjct: 244 IDLSQDKMALQRLREAAEKAKIELSSMLTTSINLPFITA--DETGPKHLEMELTRAKFEE 301
Query: 303 LIGGLLTSFVQP 314
L L+ + ++P
Sbjct: 302 LTKDLVEATIEP 313
>gnl|CDD|182440 PRK10415, PRK10415, tRNA-dihydrouridine synthase B; Provisional.
Length = 321
Score = 32.3 bits (73), Expect = 0.36
Identities = 23/86 (26%), Positives = 39/86 (45%), Gaps = 2/86 (2%)
Query: 184 DEGSVLLKVGREEPAVSMDVN-GCKIIWARHSEVQQANLKTMPEVFENITAGVVLTLSVH 242
E + ++ E A +D+N GC A L+ P++ ++I VV + V
Sbjct: 77 KEMADAARINVESGAQIIDINMGCPAKKVNRKLAGSALLQ-YPDLVKSILTEVVNAVDVP 135
Query: 243 VTIKYRLDISDSHRSVAKLRAAAETC 268
VT+K R + HR+ ++ AE C
Sbjct: 136 VTLKIRTGWAPEHRNCVEIAQLAEDC 161
>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 = 31.8 bits (72), Expect = 0.62
Identities = 22/83 (26%), Positives = 34/83 (40%), Gaps = 9/83 (10%)
Query: 246 KYRLDISDSHRSVAKLRAAAETCMHVLSTLQSSN-----VFVESLYDGLDFHHNVSRARF 300
KY+LD R++ +L E L L SSN + +E + D ++R++F
Sbjct: 250 KYKLDAKSKIRALLRLYQECEK----LKKLMSSNSTDLPLNIECFMNDKDVSGKMNRSQF 305
Query: 301 ESLIGGLLTSFVQPCMHVLSTLQ 323
E L LL P +L
Sbjct: 306 EELCADLLQRIEVPLYSLLEQTH 328
>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 = 31.5 bits (72), Expect = 0.72
Identities = 14/66 (21%), Positives = 34/66 (51%), Gaps = 8/66 (12%)
Query: 319 LSTLQSSNV---FVESLYDG---LDFHHNVSRARFESLIGGLLTSFVQPIEDVLSRSNIT 372
LS++ + + F+ + G L+ ++RA+FE L L+ ++P++ L + ++
Sbjct: 267 LSSVTETEINLPFITADATGPKHLEM--TLTRAKFEELTEDLVERTIEPVKQALKDAKLS 324
Query: 373 HDQINK 378
I++
Sbjct: 325 PSDIDE 330
Score = 30.3 bits (69), Expect = 1.8
Identities = 18/78 (23%), Positives = 37/78 (47%), Gaps = 8/78 (10%)
Query: 249 LDISDSHRSVAKLRAAAETCMHVLSTLQSSNV---FVESLYDG---LDFHHNVSRARFES 302
+D+ ++ +L+ AAE LS++ + + F+ + G L+ ++RA+FE
Sbjct: 244 IDLRKDKMALQRLKEAAEKAKIELSSVTETEINLPFITADATGPKHLEM--TLTRAKFEE 301
Query: 303 LIGGLLTSFVQPCMHVLS 320
L L+ ++P L
Sbjct: 302 LTEDLVERTIEPVKQALK 319
>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 = 31.5 bits (71), Expect = 0.82
Identities = 21/79 (26%), Positives = 34/79 (43%), Gaps = 9/79 (11%)
Query: 246 KYRLDISDSHRSVAKLRAAAETCMHVLSTLQSSN-----VFVESLYDGLDFHHNVSRARF 300
KY+LDI R++ +L E L L S+N + +E + +D ++R +F
Sbjct: 250 KYKLDIKSKIRALLRLSQECEK----LKKLMSANASDLPLNIECFMNDIDVSGTMNRGKF 305
Query: 301 ESLIGGLLTSFVQPCMHVL 319
+ LL P VL
Sbjct: 306 LEMCDDLLARVEPPLRSVL 324
Score = 28.4 bits (63), Expect = 7.5
Identities = 17/74 (22%), Positives = 31/74 (41%), Gaps = 6/74 (8%)
Query: 308 LTSFVQPCMHVLSTLQSSN-----VFVESLYDGLDFHHNVSRARFESLIGGLLTSFVQPI 362
L Q C L L S+N + +E + +D ++R +F + LL P+
Sbjct: 262 LLRLSQEC-EKLKKLMSANASDLPLNIECFMNDIDVSGTMNRGKFLEMCDDLLARVEPPL 320
Query: 363 EDVLSRSNITHDQI 376
VL ++ + + I
Sbjct: 321 RSVLEQAKLKKEDI 334
>gnl|CDD|198215 cd10352, SH2_a2chimerin_b2chimerin, Src homology 2 (SH2) domain
found in alpha2-chimerin and beta2-chimerin proteins.
Chimerins are a family of phorbol ester- and
diacylglycerol-responsive GTPase-activating proteins.
Alpha1-chimerin (formerly known as n-chimerin) and
alpha2-chimerin are alternatively spliced products of a
single gene, as are beta1- and beta2-chimerin. alpha1-
and beta1-chimerin have a relatively short N-terminal
region that does not encode any recognizable domains,
whereas alpha2- and beta2-chimerin both include a
functional SH2 domain that can bind to phosphotyrosine
motifs within receptors. All of the isoforms contain a
GAP domain with specificity in vitro for Rac1 and a
diacylglycerol (DAG)-binding C1 domain which allows them
to translocate to membranes in response to DAG signaling
and anchors them in close proximity to activated Rac.
Other C1 domain-containing diacylglycerol receptors
including: PKC, Munc-13 proteins, phorbol ester binding
scaffolding proteins involved in Ca2+-stimulated
exocytosis, and RasGRPs, diacylglycerol-activated
guanine-nucleotide exchange factors (GEFs) for Ras and
Rap1. In general SH2 domains are involved in signal
transduction. They typically bind pTyr-containing
ligands via two surface pockets, a pTyr and hydrophobic
binding pocket, allowing proteins with SH2 domains to
localize to tyrosine phosphorylated sites.
Length = 91
Score = 29.3 bits (66), Expect = 0.91
Identities = 22/85 (25%), Positives = 38/85 (44%), Gaps = 12/85 (14%)
Query: 288 GLDFHHNVSRARFESLIGG-------LLTSFVQPCMHVLSTLQSSNVFVESLY-DGLDFH 339
G ++H +SR E L+ G + S + LS + V LY DG + +
Sbjct: 6 GREYHGLISREEAEQLLSGASDGSYLIRESSRDDGYYTLSLRFNGKVKNYKLYYDGKNHY 65
Query: 340 HNVSRARFESL----IGGLLTSFVQ 360
H V RF+++ GL+T +++
Sbjct: 66 HYVGEKRFDTIHDLVADGLITLYME 90
>gnl|CDD|240403 PTZ00400, PTZ00400, DnaK-type molecular chaperone; Provisional.
Length = 663
Score = 31.3 bits (71), Expect = 1.0
Identities = 20/71 (28%), Positives = 34/71 (47%), Gaps = 4/71 (5%)
Query: 249 LDISDSHRSVAKLRAAAETCMHVLSTLQSSNV---FVESLYDGLD-FHHNVSRARFESLI 304
+D+ ++ +LR AAET LS+ + + F+ + G +SRA+ E L
Sbjct: 284 IDLKKDKLALQRLREAAETAKIELSSKTQTEINLPFITADQSGPKHLQIKLSRAKLEELT 343
Query: 305 GGLLTSFVQPC 315
LL ++PC
Sbjct: 344 HDLLKKTIEPC 354
Score = 30.6 bits (69), Expect = 1.6
Identities = 11/36 (30%), Positives = 20/36 (55%)
Query: 342 VSRARFESLIGGLLTSFVQPIEDVLSRSNITHDQIN 377
+SRA+ E L LL ++P E + + + D++N
Sbjct: 334 LSRAKLEELTHDLLKKTIEPCEKCIKDAGVKKDELN 369
>gnl|CDD|117761 pfam09208, Endonuc-MspI, Restriction endonuclease MspI. Members of
this family of prokaryotic restriction endonucleases
recognise the palindromic tetranucleotide sequence
5'-CCGG and cleave between the first and second
nucleotides, leaving 2 base 5' overhangs. They fold into
an alpha/beta architecture, with a five-stranded mixed
beta-sheet sandwiched on both sides by alpha-helices.
Length = 263
Score = 29.5 bits (66), Expect = 2.9
Identities = 16/60 (26%), Positives = 24/60 (40%), Gaps = 3/60 (5%)
Query: 6 SQAKNTIIKNKRALNTELTETDIETIVRETKVDITTNKDMIEYKISYQESSRVKAFNPIQ 65
S+ N IKN + E D+E I + K++I +Q K F P+Q
Sbjct: 113 SRIVNISIKNTSKKKVSIHEYDVEDICTGVGISDGDLKELIRK---FQNDGSAKLFTPVQ 169
>gnl|CDD|239200 cd02801, DUS_like_FMN, Dihydrouridine synthase-like (DUS-like)
FMN-binding domain. Members of this family catalyze the
reduction of the 5,6-double bond of a uridine residue on
tRNA. Dihydrouridine modification of tRNA is widely
observed in prokaryotes and eukaryotes, and also in some
archaea. Most dihydrouridines are found in the D loop of
t-RNAs. The role of dihydrouridine in tRNA is currently
unknown, but may increase conformational flexibility of
the tRNA. It is likely that different family members
have different substrate specificities, which may
overlap. 1VHN, a putative flavin oxidoreductase, has
high sequence similarity to DUS. The enzymatic
mechanism of 1VHN is not known at the present.
Length = 231
Score = 29.0 bits (66), Expect = 3.4
Identities = 18/67 (26%), Positives = 27/67 (40%), Gaps = 2/67 (2%)
Query: 202 DVN-GCKIIWARHSEVQQANLKTMPEVFENITAGVVLTLSVHVTIKYRLDISDSHRSVAK 260
D+N GC A LK PE+ I V + + VT+K RL D ++
Sbjct: 85 DLNMGCPSPKVTKGGAGAALLKD-PELVAEIVRAVREAVPIPVTVKIRLGWDDEEETLEL 143
Query: 261 LRAAAET 267
+A +
Sbjct: 144 AKALEDA 150
>gnl|CDD|215618 PLN03184, PLN03184, chloroplast Hsp70; Provisional.
Length = 673
Score = 29.4 bits (66), Expect = 3.7
Identities = 17/64 (26%), Positives = 33/64 (51%), Gaps = 4/64 (6%)
Query: 319 LSTLQSSNV---FVESLYDGLD-FHHNVSRARFESLIGGLLTSFVQPIEDVLSRSNITHD 374
LS+L +++ F+ + DG ++RA+FE L LL P+E+ L + ++
Sbjct: 305 LSSLTQTSISLPFITATADGPKHIDTTLTRAKFEELCSDLLDRCKTPVENALRDAKLSFK 364
Query: 375 QINK 378
I++
Sbjct: 365 DIDE 368
>gnl|CDD|240412 PTZ00420, PTZ00420, coronin; Provisional.
Length = 568
Score = 29.1 bits (65), Expect = 4.3
Identities = 15/36 (41%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 115 VQTLEGHGQNISAVCFHPELP-IVITGSEDGSVRVW 149
V L+GH +I + F+P I+ +GSED ++RVW
Sbjct: 67 VIKLKGHTSSILDLQFNPCFSEILASGSEDLTIRVW 102
>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 = 29.0 bits (65), Expect = 5.1
Identities = 11/41 (26%), Positives = 24/41 (58%)
Query: 338 FHHNVSRARFESLIGGLLTSFVQPIEDVLSRSNITHDQINK 378
F + ++R FE+L L + PIE VL+ ++ +++++
Sbjct: 315 FEYELTRDEFETLNEDLFQKILLPIEAVLAEGHLDKEEVDE 355
>gnl|CDD|221503 pfam12275, DUF3616, Protein of unknown function (DUF3616). This
family of proteins is found in bacteria. Proteins in
this family are typically between 335 and 392 amino
acids in length. There is a conserved GLRGPV sequence
motif.
Length = 331
Score = 28.5 bits (64), Expect = 5.4
Identities = 16/69 (23%), Positives = 29/69 (42%), Gaps = 6/69 (8%)
Query: 116 QTLEGHGQNISAVCFHPELPIVITGS---EDGSVRVWH-SGTHRLEISLTYG--LERVWT 169
L+ G I +C + +++ G DG +RV+ G E S+ LER
Sbjct: 225 HFLDLGGLGIRDLCISGDDLLILAGPTMDLDGPIRVFRWKGAAGAENSVYVATALERRVD 284
Query: 170 ISSLKGSNN 178
+ +G ++
Sbjct: 285 LPHGQGVDH 293
>gnl|CDD|216365 pfam01207, Dus, Dihydrouridine synthase (Dus). Members of this
family catalyze the reduction of the 5,6-double bond of
a uridine residue on tRNA. Dihydrouridine modification
of tRNA is widely observed in prokaryotes and
eukaryotes, and also in some archae. Most
dihydrouridines are found in the D loop of t-RNAs. The
role of dihydrouridine in tRNA is currently unknown, but
may increase conformational flexibility of the tRNA. It
is likely that different family members have different
substrate specificities, which may overlap. Dus 1 from
Saccharomyces cerevisiae acts on pre-tRNA-Phe, while Dus
2 acts on pre-tRNA-Tyr and pre-tRNA-Leu. Dus 1 is active
as a single subunit, requiring NADPH or NADH, and is
stimulated by the presence of FAD. Some family members
may be targeted to the mitochondria and even have a role
in mitochondria.
Length = 309
Score = 28.4 bits (64), Expect = 5.9
Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 6/70 (8%)
Query: 202 DVN-GC--KIIWARHSEVQQANLKTMPEVFENITAGVVLTLSVHVTIKYRLDISDSHRSV 258
D+N GC K + + A L P++ I VV + + VT+K R+ +SH +
Sbjct: 84 DINMGCPAKKVTRGGAG---AALLRDPDLVAQIVKAVVKAVDIPVTVKIRIGWDESHENA 140
Query: 259 AKLRAAAETC 268
++ E
Sbjct: 141 VEIARRVEDA 150
>gnl|CDD|164858 PHA01622, PHA01622, CRISPR-associated Cas4-like protein.
Length = 204
Score = 28.0 bits (62), Expect = 6.1
Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 2/57 (3%)
Query: 27 DIETIVRETKVDITTNKDMIEYKISYQESSRVKAFNPIQVATL--ILKTLYGHEKGV 81
+IE I ++DI N D++E K +VK ++ QVA ILK V
Sbjct: 78 EIEGIKISGRIDIVCNNDLLEIKTISYNYFQVKEYHLYQVALYYHILKKQNYQINNV 134
>gnl|CDD|226972 COG4624, COG4624, Iron only hydrogenase large subunit, C-terminal
domain [General function prediction only].
Length = 411
Score = 28.2 bits (63), Expect = 7.8
Identities = 12/33 (36%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 56 SRVKAFNPIQVATLILKTLYGHEKGVNCVDYYH 88
S VK+ P Q ++KT Y + G+ D YH
Sbjct: 166 SSVKS--PQQALGSLIKTYYAEKLGIAPEDVYH 196
>gnl|CDD|227546 COG5221, DOP1, Dopey and related predicted leucine zipper
transcription factors [Transcription].
Length = 1618
Score = 28.4 bits (63), Expect = 7.8
Identities = 15/98 (15%), Positives = 29/98 (29%), Gaps = 14/98 (14%)
Query: 272 LSTLQSSNVFVESLYDGLDFHHNVSRARFESLIGGLLTSFVQPCMHVLSTLQSSNVFVES 331
+ L S ES+ + R E + + P S E+
Sbjct: 334 MMDLLSKGKLCESIMEAFRIDIAECDRRHERDY---IEEYAPPDAF------ESERSSEN 384
Query: 332 LYDGLDFHHNVSRARFESLIGGLLTSFVQPIEDVLSRS 369
+ ++RA + + + ++DVL S
Sbjct: 385 I-----DVEKIARAFLTTDLDSVWKILYLQLKDVLLHS 417
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
0.318 0.133 0.384
Gapped
Lambda K H
0.267 0.0728 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,314,318
Number of extensions: 1712028
Number of successful extensions: 1565
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1531
Number of HSP's successfully gapped: 93
Length of query: 381
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 282
Effective length of database: 6,546,556
Effective search space: 1846128792
Effective search space used: 1846128792
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: 41 (21.7 bits)
S2: 60 (26.9 bits)