RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15003
(317 letters)
>gnl|CDD|107222 cd06465, p23_hB-ind1_like, p23_like domain found in human (h)
butyrate-induced transcript 1 (B-ind1) and similar
proteins. hB-ind1 participates in signaling by the small
GTPase Rac1. It binds to Rac1 and enhances different
Rac1 effects including activation of nuclear factor (NF)
kappaB and activation of c-Jun N-terminal kinase (JNK).
hB-ind1 also plays a part in the RNA replication and
particle production of Hepatitis C virus (HCV) through
its interaction with heat shock protein Hsp90, HCV
nonstructural protein 5A (NS5A), and the immunophilin
FKBP8. hB-ind1 is upregulated in the outer layer of
Chinese hamster V79 cells grown as multicell spheroids,
versus in the same cells grown as monolayers. This group
includes the Saccharomyces cerevisiae Sba1, a
co-chaperone of the Hsp90. Sba1 has been shown to be is
required for telomere length maintenance, and may
modulate telomerase DNA-binding activity.
Length = 108
Score = 146 bits (370), Expect = 4e-44
Identities = 52/109 (47%), Positives = 69/109 (63%), Gaps = 1/109 (0%)
Query: 21 PSVAWAQRNHCIFLTICLEDCKNPTINLDKNQLYFDGIGGTEKKHHQVTIPFYKEINAEK 80
P V WAQR+ ++LTI L D K+P I L+ L F GG K ++ + FYKEI+ E+
Sbjct: 1 PPVLWAQRSDVVYLTIELPDAKDPKIKLEPTSLSFKAKGGGGGKKYEFDLEFYKEIDPEE 60
Query: 81 SQTFVRERNIEILIKKTDDDKTYWPHLTKEKNKYHWLKVDFNKWKDEDD 129
S+ V R IE +++K + YWP LTKEK K WLKVDF+KW DED+
Sbjct: 61 SKYKVTGRQIEFVLRK-KEAGEYWPRLTKEKGKLPWLKVDFDKWVDEDE 108
Score = 146 bits (370), Expect = 4e-44
Identities = 52/109 (47%), Positives = 69/109 (63%), Gaps = 1/109 (0%)
Query: 182 PSVAWAQRNHCIFLTICLEDCKNPTINLDKNQLYFDGIGGTEKKHHQVTIPFYKEINAEK 241
P V WAQR+ ++LTI L D K+P I L+ L F GG K ++ + FYKEI+ E+
Sbjct: 1 PPVLWAQRSDVVYLTIELPDAKDPKIKLEPTSLSFKAKGGGGGKKYEFDLEFYKEIDPEE 60
Query: 242 SQTFVRERNIEILIKKTDDDKTYWPHLTKEKNKYHWLKVDFNKWKDEDD 290
S+ V R IE +++K + YWP LTKEK K WLKVDF+KW DED+
Sbjct: 61 SKYKVTGRQIEFVLRK-KEAGEYWPRLTKEKGKLPWLKVDFDKWVDEDE 108
>gnl|CDD|107218 cd00237, p23, p23 binds heat shock protein (Hsp)90 and participates
in the folding of a number of Hsp90 clients, including
the progesterone receptor. p23 also has a passive
chaperoning activity and in addition may participate in
prostaglandin synthesis.
Length = 106
Score = 69.8 bits (171), Expect = 5e-15
Identities = 34/107 (31%), Positives = 56/107 (52%), Gaps = 2/107 (1%)
Query: 20 PPSVAWAQRNHCIFLTICLEDCKNPTINLDKNQLYFDGIGGTEKKHHQVTIPFYKEINAE 79
P W R +F+ C+ED K+ ++ +K++L F + G K + I Y ++
Sbjct: 1 PAKTLWYDRRDYVFIEFCVEDSKDVKVDFEKSKLTFSCLNGDNVKIYN-EIELYDRVDPN 59
Query: 80 KSQTFVRERNIEILIKKTDDDKTYWPHLTKEKNKYHWLKVDFNKWKD 126
S+ +R+I ++K + WP LTKEK K +WL VDF+ W+D
Sbjct: 60 DSKHKRTDRSILCCLRKGKEGVA-WPRLTKEKAKPNWLSVDFDNWRD 105
Score = 69.8 bits (171), Expect = 5e-15
Identities = 34/107 (31%), Positives = 56/107 (52%), Gaps = 2/107 (1%)
Query: 181 PPSVAWAQRNHCIFLTICLEDCKNPTINLDKNQLYFDGIGGTEKKHHQVTIPFYKEINAE 240
P W R +F+ C+ED K+ ++ +K++L F + G K + I Y ++
Sbjct: 1 PAKTLWYDRRDYVFIEFCVEDSKDVKVDFEKSKLTFSCLNGDNVKIYN-EIELYDRVDPN 59
Query: 241 KSQTFVRERNIEILIKKTDDDKTYWPHLTKEKNKYHWLKVDFNKWKD 287
S+ +R+I ++K + WP LTKEK K +WL VDF+ W+D
Sbjct: 60 DSKHKRTDRSILCCLRKGKEGVA-WPRLTKEKAKPNWLSVDFDNWRD 105
>gnl|CDD|107220 cd06463, p23_like, Proteins containing this p23_like domain include
p23 and its Saccharomyces cerevisiae (Sc) homolog Sba1.
Both are co-chaperones for the heat shock protein (Hsp)
90. p23 binds Hsp90 and participates in the folding of
a number of Hsp90 clients, including the progesterone
receptor. p23 also has a passive chaperoning activity
and in addition may participate in prostaglandin
synthesis. Both p23 and Sba1p can regulate telomerase
activity. This group includes domains similar to the
C-terminal CHORD-SGT1 (CS) domain of suppressor of G2
allele of Skp1 (Sgt1). Sgt1 interacts with multiple
protein complexes and has the features of a
co-chaperone. Human (h) Sgt1 interacts with both Hsp70
and Hsp90, and has been shown to bind Hsp90 through its
CS domain. Saccharomyces cerevisiae (Sc) Sgt1 is a
subunit of both core kinetochore and SCF
(Skp1-Cul1-F-box) ubiquitin ligase complexes. Sgt1 is
required for pathogen resistance in plants. This group
also includes the p23_like domains of human
butyrate-induced transcript 1 (hB-ind1), NUD (nuclear
distribution) C, Melusin, and NAD(P)H cytochrome b5
(NCB5) oxidoreductase (OR). hB-ind1 plays a role in the
signaling pathway mediated by the small GTPase Rac1,
NUDC is needed for nuclear movement, Melusin interacts
with two splice variants of beta1 integrin, and NCB5OR
plays a part in maintaining viable pancreatic beta
cells.
Length = 84
Score = 58.8 bits (143), Expect = 2e-11
Identities = 23/86 (26%), Positives = 39/86 (45%), Gaps = 4/86 (4%)
Query: 25 WAQRNHCIFLTICLEDC--KNPTINLDKNQLYFDGIGGTEKKHHQVTIPFYKEINAEKSQ 82
W Q + +TI L+D K+ + L + G K + + + I+ E+S+
Sbjct: 1 WYQTLDEVTITIPLKDVTKKDVKVEFTPKSLTV-SVKGGGGKEYLLEGELFGPIDPEESK 59
Query: 83 TFVRERNIEILIKKTDDDKTYWPHLT 108
V +R IEI +KK + +WP L
Sbjct: 60 WTVEDRKIEITLKKK-EPGEWWPRLE 84
Score = 58.8 bits (143), Expect = 2e-11
Identities = 23/86 (26%), Positives = 39/86 (45%), Gaps = 4/86 (4%)
Query: 186 WAQRNHCIFLTICLEDC--KNPTINLDKNQLYFDGIGGTEKKHHQVTIPFYKEINAEKSQ 243
W Q + +TI L+D K+ + L + G K + + + I+ E+S+
Sbjct: 1 WYQTLDEVTITIPLKDVTKKDVKVEFTPKSLTV-SVKGGGGKEYLLEGELFGPIDPEESK 59
Query: 244 TFVRERNIEILIKKTDDDKTYWPHLT 269
V +R IEI +KK + +WP L
Sbjct: 60 WTVEDRKIEITLKKK-EPGEWWPRLE 84
>gnl|CDD|218355 pfam04969, CS, CS domain. The CS and CHORD (pfam04968) are fused
into a single polypeptide chain in metazoans but are
found in separate proteins in plants; this is thought
to be indicative of an interaction between CS and
CHORD. It has been suggested that the CS domain is a
binding module for HSP90, implying that CS
domain-containing proteins are involved in recruiting
heat shock proteins to multiprotein assemblies.
Length = 78
Score = 41.4 bits (98), Expect = 3e-05
Identities = 17/79 (21%), Positives = 31/79 (39%), Gaps = 4/79 (5%)
Query: 21 PSVAWAQRNHCIFLTICLEDCKNP---TINLDKNQLYFDGIGGTEKKHHQVTIPFYKEIN 77
P W Q + +TI L+ + + L I G K + + + I+
Sbjct: 1 PRYDWYQTLDEVTITIPLKGVTKKKDVKVEIKPRSLKV-SIKGPGGKEYLLDGELFGPID 59
Query: 78 AEKSQTFVRERNIEILIKK 96
E+S + + +EI +KK
Sbjct: 60 PEESSWKIEDTKVEITLKK 78
Score = 41.4 bits (98), Expect = 3e-05
Identities = 17/79 (21%), Positives = 31/79 (39%), Gaps = 4/79 (5%)
Query: 182 PSVAWAQRNHCIFLTICLEDCKNP---TINLDKNQLYFDGIGGTEKKHHQVTIPFYKEIN 238
P W Q + +TI L+ + + L I G K + + + I+
Sbjct: 1 PRYDWYQTLDEVTITIPLKGVTKKKDVKVEIKPRSLKV-SIKGPGGKEYLLDGELFGPID 59
Query: 239 AEKSQTFVRERNIEILIKK 257
E+S + + +EI +KK
Sbjct: 60 PEESSWKIEDTKVEITLKK 78
>gnl|CDD|107219 cd00298, ACD_sHsps_p23-like, This domain family includes the
alpha-crystallin domain (ACD) of alpha-crystallin-type
small heat shock proteins (sHsps) and a similar domain
found in p23-like proteins. sHsps are small stress
induced proteins with monomeric masses between 12 -43
kDa, whose common feature is this ACD. sHsps are
generally active as large oligomers consisting of
multiple subunits, and are believed to be
ATP-independent chaperones that prevent aggregation and
are important in refolding in combination with other
Hsps. p23 is a cochaperone of the Hsp90 chaperoning
pathway. It binds Hsp90 and participates in the folding
of a number of Hsp90 clients including the progesterone
receptor. p23 also has a passive chaperoning activity.
p23 in addition may act as the cytosolic prostaglandin
E2 synthase. Included in this family is the p23-like
C-terminal CHORD-SGT1 (CS) domain of suppressor of G2
allele of Skp1 (Sgt1) and the p23-like domains of
human butyrate-induced transcript 1 (hB-ind1), NUD
(nuclear distribution) C, Melusin, and NAD(P)H
cytochrome b5 (NCB5) oxidoreductase (OR).
Length = 80
Score = 37.6 bits (88), Expect = 6e-04
Identities = 14/80 (17%), Positives = 34/80 (42%), Gaps = 8/80 (10%)
Query: 25 WAQRNHCIFLTICLEDC--KNPTINLDKNQLYFDGIGGTEK------KHHQVTIPFYKEI 76
W Q + + +T+ L ++ + ++ N L G E+ + + +++
Sbjct: 1 WYQTDDEVVVTVDLPGVKKEDIKVEVEDNVLTISGKREEEEERERSYGEFERSFELPEDV 60
Query: 77 NAEKSQTFVRERNIEILIKK 96
+ EKS+ + +EI + K
Sbjct: 61 DPEKSKASLENGVLEITLPK 80
Score = 37.6 bits (88), Expect = 6e-04
Identities = 14/80 (17%), Positives = 34/80 (42%), Gaps = 8/80 (10%)
Query: 186 WAQRNHCIFLTICLEDC--KNPTINLDKNQLYFDGIGGTEK------KHHQVTIPFYKEI 237
W Q + + +T+ L ++ + ++ N L G E+ + + +++
Sbjct: 1 WYQTDDEVVVTVDLPGVKKEDIKVEVEDNVLTISGKREEEEERERSYGEFERSFELPEDV 60
Query: 238 NAEKSQTFVRERNIEILIKK 257
+ EKS+ + +EI + K
Sbjct: 61 DPEKSKASLENGVLEITLPK 80
>gnl|CDD|233988 TIGR02734, crtI_fam, phytoene desaturase. Phytoene is converted to
lycopene by desaturation at four (two symmetrical pairs
of) sites. This is achieved by two enzymes (crtP and
crtQ) in cyanobacteria (Gloeobacter being an exception)
and plants, but by a single enzyme in most other
bacteria and in fungi. This single enzyme is called the
bacterial-type phytoene desaturase, or CrtI. Most
members of this family, part of the larger Pfam family
pfam01593, which also contains amino oxidases, are CrtI
itself; it is likely that all members act on either
phytoene or on related compounds such as
dehydrosqualene, for carotenoid biosynthesis
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 502
Score = 33.8 bits (78), Expect = 0.11
Identities = 13/49 (26%), Positives = 21/49 (42%)
Query: 137 GNFEDVAGFLLENSPAWDILYQIVYNFNSLVVSRSTYYQPKAVTPPSVA 185
G++ +A L P + L+ ++ L S Y VT PS+A
Sbjct: 316 GHWPQLAHHTLCFGPRYKELFDEIFRKGRLAEDPSLYLHRPTVTDPSLA 364
>gnl|CDD|181550 PRK08764, PRK08764, ferredoxin; Provisional.
Length = 135
Score = 31.4 bits (71), Expect = 0.24
Identities = 20/73 (27%), Positives = 26/73 (35%), Gaps = 16/73 (21%)
Query: 4 ISHLELVPGYEIDKV----TPPSVAWAQRNHCIFLTICLEDCKNPTINLDKNQLYFDGIG 59
++ + VP D+ P VAW CI T C++ C P D I
Sbjct: 56 LAQVLGVPARPYDRSRGTHKLPQVAWIVEADCIGCTKCIQAC--PV----------DAIV 103
Query: 60 GTEKKHHQVTIPF 72
G K H V P
Sbjct: 104 GGAKHMHTVIAPL 116
Score = 31.0 bits (70), Expect = 0.36
Identities = 17/54 (31%), Positives = 19/54 (35%), Gaps = 12/54 (22%)
Query: 180 TPPSVAWAQRNHCIFLTICLEDCKNPTINLDKNQLYFDGIGGTEKKHHQVTIPF 233
P VAW CI T C++ C P D I G K H V P
Sbjct: 75 KLPQVAWIVEADCIGCTKCIQAC--PV----------DAIVGGAKHMHTVIAPL 116
>gnl|CDD|233648 TIGR01944, rnfB, electron transport complex, RnfABCDGE type, B
subunit. The six subunit complex RnfABCDGE in
Rhodobacter capsulatus encodes an apparent NADH
oxidoreductase responsible for electron transport to
nitrogenase, necessary for nitrogen fixation. A closely
related complex in E. coli, RsxABCDGE (Reducer of SoxR),
reduces the 2Fe-2S-containing superoxide sensor SoxR,
active as a transcription factor when oxidized. This
family of putative NADH oxidoreductase complexes exists
in many of the same species as the related NQR, a
Na(+)-translocating NADH-quinone reductase, but is
distinct. This model describes the B subunit [Energy
metabolism, Electron transport].
Length = 165
Score = 31.7 bits (72), Expect = 0.29
Identities = 18/74 (24%), Positives = 27/74 (36%), Gaps = 18/74 (24%)
Query: 1 MSRISHLELVP------GYEIDKVTPPSVAWAQRNHCIFLTICLEDCKNPTINLDKNQLY 54
+ ++ L V + + PP VA ++CI T C++ C P
Sbjct: 79 ILALAELLGVEPIPQPLDADAGTIQPPMVALIDEDNCIGCTKCIQAC--PV--------- 127
Query: 55 FDGIGGTEKKHHQV 68
D I G K H V
Sbjct: 128 -DAIVGAAKAMHTV 140
Score = 30.5 bits (69), Expect = 0.68
Identities = 16/49 (32%), Positives = 20/49 (40%), Gaps = 12/49 (24%)
Query: 181 PPSVAWAQRNHCIFLTICLEDCKNPTINLDKNQLYFDGIGGTEKKHHQV 229
PP VA ++CI T C++ C P D I G K H V
Sbjct: 104 PPMVALIDEDNCIGCTKCIQAC--PV----------DAIVGAAKAMHTV 140
>gnl|CDD|107225 cd06468, p23_CacyBP, p23_like domain found in proteins similar to
Calcyclin-Binding Protein(CacyBP)/Siah-1-interacting
protein (SIP). CacyBP/SIP interacts with S100A6
(calcyclin), with some other members of the S100 family,
with tubulin, and with Siah-1 and Skp-1. The latter two
are components of the ubiquitin ligase that regulates
beta-catenin degradation. The beta-catenin gene is an
oncogene participating in tumorigenesis in many
different cancers. Overexpression of CacyBP/SIP, in part
through its effect on the expression of beta-catenin,
inhibits the proliferation, tumorigenicity, and invasion
of gastric cancer cells. CacyBP/SIP is abundant in
neurons and neuroblastoma NB2a cells. An extensive
re-organization of microtubules accompanies the
differentiation of NB2a cells. CacyBP/SIP may contribute
to NB2a cell differentiation through binding to and
increasing the oligomerization of tubulin. CacyBP/SIP is
also implicated in differentiation of erythroid cells,
rat neonatal cardiomyocytes, in mouse endometrial
events, and in thymocyte development.
Length = 92
Score = 29.5 bits (67), Expect = 0.65
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 62 EKKHHQVTIP-FYKEINAEKSQTFVRERNIEILIKKTDDDKTYWPHLT 108
K+++ TI K+I+ EKS V+ I I + K + K W LT
Sbjct: 47 NGKNYRFTINRLLKKIDPEKSSFKVKTDRIVITLAKKKEKK--WESLT 92
Score = 29.5 bits (67), Expect = 0.65
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 223 EKKHHQVTIP-FYKEINAEKSQTFVRERNIEILIKKTDDDKTYWPHLT 269
K+++ TI K+I+ EKS V+ I I + K + K W LT
Sbjct: 47 NGKNYRFTINRLLKKIDPEKSSFKVKTDRIVITLAKKKEKK--WESLT 92
>gnl|CDD|225433 COG2878, COG2878, Predicted NADH:ubiquinone oxidoreductase, subunit
RnfB [Energy production and conversion].
Length = 198
Score = 30.5 bits (69), Expect = 0.74
Identities = 17/73 (23%), Positives = 24/73 (32%), Gaps = 17/73 (23%)
Query: 1 MSRISHL-----ELVPGYEIDKVTPPSVAWAQRNHCIFLTICLEDCKNPTINLDKNQLYF 55
+ +I+ L G E + VA +CI T C++ C
Sbjct: 82 IRKIAELLGVEPPPADGSEHGEEQARMVALIDEANCIGCTKCIQACP------------V 129
Query: 56 DGIGGTEKKHHQV 68
D I G K H V
Sbjct: 130 DAIVGATKAMHTV 142
>gnl|CDD|107223 cd06466, p23_CS_SGT1_like, p23_like domain similar to the
C-terminal CHORD-SGT1 (CS) domain of Sgt1 (suppressor of
G2 allele of Skp1). Sgt1 interacts with multiple protein
complexes and has the features of a cochaperone. Human
(h) Sgt1 interacts with both Hsp70 and Hsp90, and has
been shown to bind Hsp90 through its CS domain.
Saccharomyces cerevisiae (Sc) Sgt1 is a subunit of both
core kinetochore and SCF (Skp1-Cul1-F-box) ubiquitin
ligase complexes. Sgt1 is required for pathogen
resistance in plants. ScSgt1 is needed for the G1/S and
G2/M cell-cycle transitions, and for assembly of the
core kinetochore complex (CBF3) via activation of Ctf13,
the F-box protein. Binding of Hsp82 (a yeast Hsp90
homologue) to ScSgt1, promotes the binding of Sgt1 to
Skp1 and of Skp1 to Ctf13. Some proteins in this group
have an SGT1-specific (SGS) domain at the extreme
C-terminus. The ScSgt1-SGS domain binds adenylate
cyclase. The hSgt1-SGS domain interacts with some S100
family proteins, and studies suggest that the
interaction of hSgt1 with Hsp90 and Hsp70 may be
regulated by S100A6 in a Ca2+ dependent fashion. This
group also includes the p23_like domains of Melusin and
NAD(P)H cytochrome b5 (NCB5) oxidoreductase (OR).
Melusin is a vertebrate protein which interacts with two
splice variants of beta1 integrin, and NCB5OR plays a
part in maintaining viable pancreatic beta cells.
Length = 84
Score = 27.9 bits (63), Expect = 2.0
Identities = 14/67 (20%), Positives = 29/67 (43%), Gaps = 3/67 (4%)
Query: 42 KNPTINLDKNQLYFDGIGGTEKKHHQVTIPFYKEINAEKSQTFVRERNIEILIKKTDDDK 101
++ + ++ L I +Q+ + + I+ E+S+ V +EI +KK +
Sbjct: 21 EDVKVEFNEQSLSVSIILPGGS-EYQLELDLFGPIDPEQSKVSVLPTKVEITLKK--AEP 77
Query: 102 TYWPHLT 108
WP L
Sbjct: 78 GSWPSLE 84
Score = 27.9 bits (63), Expect = 2.0
Identities = 14/67 (20%), Positives = 29/67 (43%), Gaps = 3/67 (4%)
Query: 203 KNPTINLDKNQLYFDGIGGTEKKHHQVTIPFYKEINAEKSQTFVRERNIEILIKKTDDDK 262
++ + ++ L I +Q+ + + I+ E+S+ V +EI +KK +
Sbjct: 21 EDVKVEFNEQSLSVSIILPGGS-EYQLELDLFGPIDPEQSKVSVLPTKVEITLKK--AEP 77
Query: 263 TYWPHLT 269
WP L
Sbjct: 78 GSWPSLE 84
>gnl|CDD|217651 pfam03635, Vps35, Vacuolar protein sorting-associated protein 35.
Vacuolar protein sorting-associated protein (Vps) 35 is
one of around 50 proteins involved in protein
trafficking. In particular, Vps35 assembles into a
retromer complex with at least four other proteins Vps5,
Vps17, Vps26 and Vps29. Vps35 contains a central region
of weaker sequence similarity, thought to indicate the
presence of at least three domains.
Length = 741
Score = 28.4 bits (64), Expect = 5.8
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 127 EDDSDDENNGGNFEDVAGFLLEN 149
+ S +E GG +D FLL N
Sbjct: 150 DTGSYEEGGGGTVQDSIEFLLTN 172
>gnl|CDD|132559 TIGR03520, GldE, gliding motility-associated protein GldE. Members
of this protein family are exclusive to the
Bacteroidetes phylum (previously
Cytophaga-Flavobacteria-Bacteroides). GldC is a protein
linked to a type of rapid surface gliding motility found
in certain Bacteroidetes, such as Flavobacterium
johnsoniae and Cytophaga hutchinsonii. GldE was
discovered because of its adjacency to GldD in F.
johnsonii. Overexpression of GldE partially supresses
the effects of a GldB point mutant suggesting that GldB
and GldE interact. Gliding motility appears closely
linked to chitin utilization in the model species
Flavobacterium johnsoniae. Not all Bacteroidetes with
members of this protein family appear to have all of the
genes associated with gliding motility and in fact some
do not appear to express the gliding phenotype.
Length = 408
Score = 28.1 bits (63), Expect = 7.7
Identities = 12/31 (38%), Positives = 16/31 (51%)
Query: 120 DFNKWKDEDDSDDENNGGNFEDVAGFLLENS 150
DF K ++ + G E +AGFLLE S
Sbjct: 343 DFYKILKLEEDMFDEVKGEAETLAGFLLEIS 373
>gnl|CDD|233073 TIGR00653, GlnA, glutamine synthetase, type I. Alternate name:
glutamate--ammonia ligase. This model represents the
dodecameric form, which can be subdivided into 1-alpha
and 1-beta forms. The phylogeny of the 1-alpha and
1-beta forms appears polyphyletic. E. coli,
Synechocystis PCC6803, Aquifex aeolicus, and the
crenarcheon Sulfolobus acidocaldarius have form 1-beta,
while Bacillus subtilis, Thermotoga maritima, and
various euryarchaea has form 1-alpha. The 1-beta
dodecamer from the crenarcheon Sulfolobus acidocaldarius
differs from that in E. coli in that it is not regulated
by adenylylation [Amino acid biosynthesis, Glutamate
family].
Length = 459
Score = 27.7 bits (62), Expect = 9.0
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 4/25 (16%)
Query: 5 SHLELVPGYEIDKVTPPSVAWAQRN 29
S+ LVPGYE P +A++ RN
Sbjct: 310 SYKRLVPGYE----APVYLAYSARN 330
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
0.317 0.136 0.430
Gapped
Lambda K H
0.267 0.0723 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,523,871
Number of extensions: 1584417
Number of successful extensions: 1269
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1257
Number of HSP's successfully gapped: 50
Length of query: 317
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 220
Effective length of database: 6,635,264
Effective search space: 1459758080
Effective search space used: 1459758080
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: 59 (26.5 bits)