RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4488
(194 letters)
>gnl|CDD|239627 cd03571, ENTH_epsin, ENTH domain, Epsin family; The epsin (Eps15
interactor) N-terminal homology (ENTH) domain is an
evolutionarily conserved protein module found primarily
in proteins that participate in clathrin-mediated
endocytosis. A set of proteins previously designated as
harboring an ENTH domain in fact contains a highly
similar, yet unique module referred to as an AP180
N-terminal homology (ANTH) domain. ENTH and ANTH
(E/ANTH) domains are structurally similar to the VHS
domain and are composed of a superhelix of eight alpha
helices. E/ANTH domains bind both inositol phospholipids
and proteins and contribute to the nucleation and
formation of clathrin coats on membranes. ENTH domains
also function in the development of membrane curvature
through lipid remodeling during the formation of
clathrin-coated vesicles. E/ANTH-bearing proteins have
recently been shown to function with adaptor protein-1
and GGA adaptors at the trans-Golgi network, which
suggests that E/ANTH domains are universal components of
the machinery for clathrin-mediated membrane budding.
Length = 123
Score = 146 bits (371), Expect = 1e-45
Identities = 55/74 (74%), Positives = 66/74 (89%)
Query: 104 DAQVKVREATSNDPWGPSSSLMSEIADLTYNVVAFTEIMAMIWKRLNDSGKNWRHVYKAL 163
+A++KVREATSNDPWGPS +LM+EIA TYN V F EIM+M+WKRLND GKNWRHVYKAL
Sbjct: 1 EAELKVREATSNDPWGPSGTLMAEIARATYNYVEFQEIMSMLWKRLNDKGKNWRHVYKAL 60
Query: 164 SLLEYLIKTGSDKV 177
+LLEYL+K GS++V
Sbjct: 61 TLLEYLLKNGSERV 74
Score = 72.2 bits (178), Expect = 1e-16
Identities = 30/50 (60%), Positives = 39/50 (78%), Gaps = 1/50 (2%)
Query: 1 VAFQCKENIFLIQTLRDFQYTEE-GKDQGFNVREKAKALATLLGDEERLR 49
V +EN+++I+TL+DFQY +E GKDQG NVREKAK + LL D+ERLR
Sbjct: 74 VVDDARENLYIIRTLKDFQYIDENGKDQGINVREKAKEILELLEDDERLR 123
>gnl|CDD|216488 pfam01417, ENTH, ENTH domain. The ENTH (Epsin N-terminal homology)
domain is found in proteins involved in endocytosis and
cytoskeletal machinery. The function of the ENTH domain
is unknown.
Length = 124
Score = 141 bits (357), Expect = 1e-43
Identities = 55/76 (72%), Positives = 68/76 (89%)
Query: 102 YSDAQVKVREATSNDPWGPSSSLMSEIADLTYNVVAFTEIMAMIWKRLNDSGKNWRHVYK 161
YS+ ++KVREAT+NDPWGPS +LM+EIA LTY+ V F EIM ++WKRLNDSGKNWRHVYK
Sbjct: 1 YSETELKVREATNNDPWGPSGTLMAEIARLTYDYVEFFEIMEVLWKRLNDSGKNWRHVYK 60
Query: 162 ALSLLEYLIKTGSDKV 177
AL+LLEYL+K GS++V
Sbjct: 61 ALTLLEYLLKNGSERV 76
Score = 65.3 bits (160), Expect = 4e-14
Identities = 28/49 (57%), Positives = 37/49 (75%), Gaps = 1/49 (2%)
Query: 1 VAFQCKENIFLIQTLRDFQYTEE-GKDQGFNVREKAKALATLLGDEERL 48
V +E+I++I+TLRDF Y +E GKDQG NVR+KAK + LL D+ERL
Sbjct: 76 VVDDLREHIYIIRTLRDFHYIDEDGKDQGINVRKKAKQILNLLEDDERL 124
>gnl|CDD|214594 smart00273, ENTH, Epsin N-terminal homology (ENTH) domain.
Length = 127
Score = 101 bits (255), Expect = 4e-28
Identities = 42/78 (53%), Positives = 55/78 (70%), Gaps = 2/78 (2%)
Query: 103 SDAQVKVREATSNDPWGPSSSLMSEIADLTYNV-VAFTEIMAMIWKRLNDSGKNWRHVYK 161
SD +VKVR+AT+ND WGP + EI T+N +F EIMA++W+RLND+ NWR VYK
Sbjct: 1 SDLEVKVRKATNNDEWGPKGKHLREIIQGTHNEKSSFAEIMAVLWRRLNDTK-NWRVVYK 59
Query: 162 ALSLLEYLIKTGSDKVTR 179
AL LL YL++ GS +V
Sbjct: 60 ALILLHYLLRNGSPRVIL 77
Score = 51.1 bits (123), Expect = 9e-09
Identities = 23/53 (43%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 1 VAFQCKENIFLIQTLRDFQYTEE-GKDQGFNVREKAKALATLLGDEERLRNER 52
V + N I L DFQ + GKDQG N+R AK L L D+ RL+ ER
Sbjct: 75 VILEALRNRNRILNLSDFQDIDSRGKDQGANIRTYAKYLLERLEDDRRLKEER 127
>gnl|CDD|238118 cd00197, VHS_ENTH_ANTH, VHS, ENTH and ANTH domain superfamily;
composed of proteins containing a VHS, ENTH or ANTH
domain. The VHS domain is present in Vps27 (Vacuolar
Protein Sorting), Hrs (Hepatocyte growth
factor-regulated tyrosine kinase substrate) and STAM
(Signal Transducing Adaptor Molecule). It is located at
the N-termini of proteins involved in intracellular
membrane trafficking. The epsin N-terminal homology
(ENTH) domain is an evolutionarily conserved protein
module found primarily in proteins that participate in
clathrin-mediated endocytosis. A set of proteins
previously designated as harboring an ENTH domain in
fact contains a highly similar, yet unique module
referred to as an AP180 N-terminal homology (ANTH)
domain. VHS, ENTH and ANTH domains are structurally
similar and are composed of a superhelix of eight alpha
helices. ENTH adnd ANTH (E/ANTH) domains bind both
inositol phospholipids and proteins and contribute to
the nucleation and formation of clathrin coats on
membranes. ENTH domains also function in the development
of membrane curvature through lipid remodeling during
the formation of clathrin-coated vesicles. E/ANTH
domain-bearing proteins have recently been shown to
function with adaptor protein-1 and GGA adaptors at the
trans-Golgi network, which suggests that E/ANTH domains
are universal components of the machinery for
clathrin-mediated membrane budding.
Length = 115
Score = 82.5 bits (204), Expect = 9e-21
Identities = 29/73 (39%), Positives = 40/73 (54%), Gaps = 3/73 (4%)
Query: 108 KVREATSNDPWGPSSSLMSEIADLTYN-VVAFTEIMAMIWKRLNDSGKNWRHVYKALSLL 166
V +ATSN+ GP L+ EI DL V E + I KR+N+ KN V KAL+LL
Sbjct: 4 TVEKATSNENMGPDWPLIMEICDLINETNVGPKEAVDAIKKRINN--KNPHVVLKALTLL 61
Query: 167 EYLIKTGSDKVTR 179
EY +K ++ +
Sbjct: 62 EYCVKNCGERFHQ 74
Score = 27.8 bits (62), Expect = 1.8
Identities = 12/35 (34%), Positives = 17/35 (48%)
Query: 4 QCKENIFLIQTLRDFQYTEEGKDQGFNVREKAKAL 38
+ N F ++ L+ + G D NVREKA L
Sbjct: 75 EVASNDFAVELLKFDKSKLLGDDVSTNVREKAIEL 109
>gnl|CDD|239620 cd03561, VHS, VHS domain family; The VHS domain is present in Vps27
(Vacuolar Protein Sorting), Hrs (Hepatocyte growth
factor-regulated tyrosine kinase substrate) and STAM
(Signal Transducing Adaptor Molecule). It has a
superhelical structure similar to that of the ARM
(Armadillo) repeats and is present at the N-termini of
proteins involved in intracellular membrane trafficking.
There are four general groups of VHS domain containing
proteins based on their association with other domains.
The first group consists of proteins of the
STAM/EAST/Hbp family which has the domain composition
VHS-SH3-ITAM. The second consists of proteins with a
FYVE domain C-terminal to VHS. The third consists of GGA
proteins with a domain composition VHS-GAT (GGA and
TOM)-GAE (gamma-adaptin ear) domain. The fourth consists
of proteins with a VHS domain alone or with domains
other than those mentioned above. In GGA proteins, VHS
domains are involved in cargo recognition in
trans-Golgi, thereby having a general membrane
targeting/cargo recognition role in vesicular
trafficking.
Length = 133
Score = 32.6 bits (75), Expect = 0.045
Identities = 20/75 (26%), Positives = 27/75 (36%), Gaps = 5/75 (6%)
Query: 105 AQVKVREATSNDPWGPSSSLMSEIADL-TYNVVAFTEIMAMIWKRLNDSGKNWRHV-YKA 162
+ ATS P +L E+ DL E I K++ HV A
Sbjct: 1 VTSLIERATSPSLEEPDWALNLELCDLINLKPNGPKEAARAIRKKIKYGNP---HVQLLA 57
Query: 163 LSLLEYLIKTGSDKV 177
L+LLE L+K
Sbjct: 58 LTLLELLVKNCGKPF 72
>gnl|CDD|238688 cd01394, radB, RadB. The archaeal protein radB shares similarity
radA, the archaeal functional homologue to the bacterial
RecA. The precise function of radB is unclear.
Length = 218
Score = 31.3 bits (71), Expect = 0.22
Identities = 18/53 (33%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 44 DEERLRNERARQLKARERFARSASSGFGSEGSAMRRQREDIQEGVAGLRRNIK 96
D E L +ER RQ+ A +R R+ASS E Q IQE +
Sbjct: 54 DTEGLSSERFRQI-AGDRPERAASSIIVFEPMDFNEQGRAIQETETFADEKVD 105
>gnl|CDD|215084 PLN00164, PLN00164, glucosyltransferase; Provisional.
Length = 480
Score = 31.2 bits (71), Expect = 0.35
Identities = 21/67 (31%), Positives = 31/67 (46%), Gaps = 12/67 (17%)
Query: 33 EKAKALATLLGDEERLRNERARQLKARERFA------RSASSGFGSEGSAMRRQREDIQE 86
E +A+ +L+G E E R KARE+ A R A GS +A++R +I+
Sbjct: 420 ELERAVRSLMGGGE----EEGR--KAREKAAEMKAACRKAVEEGGSSYAALQRLAREIRH 473
Query: 87 GVAGLRR 93
G R
Sbjct: 474 GAVAPTR 480
>gnl|CDD|233189 TIGR00924, yjdL_sub1_fam, amino acid/peptide transporter
(Peptide:H+ symporter), bacterial. The model describes
proton-dependent oligopeptide transporters in bacteria.
This model is restricted in its range in recognizing
bacterial proton-dependent oligopeptide transporters,
although they are found in yeast, plants and animals.
They function by proton symport in a 1:1 stoichiometry,
which is variable in different species. All of them are
predicted to contain 12 transmembrane domains, for which
limited experimental evidence exists [Transport and
binding proteins, Amino acids, peptides and amines].
Length = 475
Score = 30.2 bits (68), Expect = 0.71
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 135 VVAFTEIMAMIWKRLNDSGKNWRHVYK 161
VV + ++AMIW RL GK+ K
Sbjct: 325 VVVGSPVLAMIWTRLGRKGKDPTTPLK 351
>gnl|CDD|215457 PLN02852, PLN02852, ferredoxin-NADP+ reductase.
Length = 491
Score = 30.0 bits (68), Expect = 0.74
Identities = 13/51 (25%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 28 GFNVREKAKALATLLGDEERLRNERARQLKARERFARSASSGFGSEGSAMR 78
VR K L DEE L+ R ++ + E +++A++G + R
Sbjct: 239 NVRVRIKEADLTLSPEDEEELKASRPKR-RVYELLSKAAAAGKCAPSGGQR 288
>gnl|CDD|227608 COG5283, COG5283, Phage-related tail protein [Function unknown].
Length = 1213
Score = 30.3 bits (68), Expect = 0.80
Identities = 19/87 (21%), Positives = 36/87 (41%), Gaps = 5/87 (5%)
Query: 30 NVREKAKALATLLGDEERLRNERARQLKARERFARSASSGFGSEGSAMRRQREDIQEGVA 89
+++++ K + ++ E Q E RS S FG + Q+++IQ
Sbjct: 75 DLKQEVKEVNRATQASKKAYQEYNAQYTQAENKLRSLSGQFGVASEQLMLQQKEIQRLQY 134
Query: 90 GLRRNIKNLAHNYSDAQVKVREATSND 116
+ K++A AQ ++ E T N
Sbjct: 135 AISTLNKSMA-----AQARLLEQTGNK 156
>gnl|CDD|220560 pfam10090, DUF2328, Uncharacterized protein conserved in bacteria
(DUF2328). Members of this family of hypothetical
bacterial proteins have no known function.
Length = 181
Score = 29.1 bits (66), Expect = 1.1
Identities = 16/49 (32%), Positives = 22/49 (44%), Gaps = 3/49 (6%)
Query: 43 GDEERLRNERARQLKARERFARSASSGFGSEGSAMRRQREDIQEGVAGL 91
G E L E AR AR RF R A FG+ G+ + + + + G
Sbjct: 20 GPEMALIRESARNASARLRFFRLA---FGAAGAGQQIDLAEAKSVLEGY 65
>gnl|CDD|239628 cd03572, ENTH_epsin_related, ENTH domain, Epsin Related family;
composed of hypothetical proteins containing an
ENTH-like domain. The epsin N-terminal homology (ENTH)
domain is an evolutionarily conserved protein module
found primarily in proteins that participate in
clathrin-mediated endocytosis. A set of proteins
previously designated as harboring an ENTH domain in
fact contains a highly similar, yet unique module
referred to as an AP180 N-terminal homology (ANTH)
domain. ENTH and ANTH (E/ANTH) domains are structurally
similar to the VHS domain and are composed of a
superhelix of eight alpha helices. E/ANTH domains bind
both inositol phospholipids and proteins and contribute
to the nucleation and formation of clathrin coats on
membranes. ENTH domains also function in the development
of membrane curvature through lipid remodeling during
the formation of clathrin-coated vesicles.
E/ANTH-bearing proteins have recently been shown to
function with adaptor protein-1 and GGA adaptors at the
trans-Golgi network, which suggests that E/ANTH domains
are universal components of the machinery for
clathrin-mediated membrane budding.
Length = 122
Score = 28.4 bits (64), Expect = 1.2
Identities = 22/66 (33%), Positives = 34/66 (51%), Gaps = 5/66 (7%)
Query: 112 ATSNDPWGPSSSLMSEIADLTY-NVVAFTEIMAMIWKRLNDSGKNWRHV-YKALSLLEYL 169
ATS+D L EIA LT +V + E++ + KRL S HV K L ++++L
Sbjct: 9 ATSDDDEPTPGYLYEEIAKLTRKSVGSCQELLEYLLKRLKRSSP---HVKLKVLKIIKHL 65
Query: 170 IKTGSD 175
+ G+
Sbjct: 66 CEKGNS 71
>gnl|CDD|219498 pfam07651, ANTH, ANTH domain. AP180 is an endocytotic accessory
proteins that has been implicated in the formation of
clathrin-coated pits. The domain is involved in
phosphatidylinositol 4,5-bisphosphate binding and is a
universal adaptor for nucleation of clathrin coats.
Length = 278
Score = 28.8 bits (65), Expect = 1.7
Identities = 23/78 (29%), Positives = 37/78 (47%), Gaps = 1/78 (1%)
Query: 102 YSDAQVKVREATSNDPWGPSSSLMSEIADLTYNVVAFTEIMAMIWKRLNDSGKNWRHVYK 161
SD +V V +ATS+D P + EI T + + + +RL + +NW K
Sbjct: 1 DSDLEVAVVKATSHDEVPPKKKHVREILVGTSSPAKVAALFWALSRRLPLT-RNWVVALK 59
Query: 162 ALSLLEYLIKTGSDKVTR 179
AL L+ L++ G V +
Sbjct: 60 ALILVHKLLREGHPSVLQ 77
>gnl|CDD|217433 pfam03223, V-ATPase_C, V-ATPase subunit C.
Length = 371
Score = 28.8 bits (65), Expect = 1.8
Identities = 15/54 (27%), Positives = 24/54 (44%), Gaps = 9/54 (16%)
Query: 5 CKENIFLIQTLRDFQYTEEGKDQGFNVREKAKALATLLGDEERLRNERARQLKA 58
C+E F +RDF+Y+EE ++ R K DE++ R L+
Sbjct: 241 CREKKF---IVRDFKYSEELSEEEKRERTKLAT------DEKKQEGALLRLLRV 285
>gnl|CDD|237173 PRK12684, PRK12684, transcriptional regulator CysB-like protein;
Reviewed.
Length = 313
Score = 28.8 bits (65), Expect = 1.9
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 15 LRDFQYTEEGKDQGFNVREKAKALAT 40
L ++ E Q FN+ E AKAL T
Sbjct: 3 LHQLRFVREAVRQNFNLTEAAKALYT 28
>gnl|CDD|192254 pfam09333, ATG_C, ATG C terminal domain. ATG2 (also known as Apg2)
is a peripheral membrane protein. It functions in both
cytoplasm to vacuole targeting and autophagy.
Length = 98
Score = 27.6 bits (62), Expect = 2.0
Identities = 11/41 (26%), Positives = 17/41 (41%), Gaps = 4/41 (9%)
Query: 78 RRQREDIQEGVA----GLRRNIKNLAHNYSDAQVKVREATS 114
Q ED++EG+ L R + A A +V E+
Sbjct: 7 ANQPEDLREGLKKAYSSLGRGLLIAADALIAAPSEVHESKG 47
>gnl|CDD|144972 pfam01576, Myosin_tail_1, Myosin tail. The myosin molecule is a
multi-subunit complex made up of two heavy chains and
four light chains it is a fundamental contractile
protein found in all eukaryote cell types. This family
consists of the coiled-coil myosin heavy chain tail
region. The coiled-coil is composed of the tail from two
molecules of myosin. These can then assemble into the
macromolecular thick filament. The coiled-coil region
provides the structural backbone the thick filament.
Length = 859
Score = 28.5 bits (64), Expect = 2.8
Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 4/82 (4%)
Query: 34 KAKALATLLGDEERLRNERARQLKARERFARSASSGFGSEGSAMRRQREDIQEGVAGLRR 93
K K +L + +R +E +L +R AR+ S+ E ++ + E++++ V LRR
Sbjct: 378 KQKNFDKILAEWKRKVDELQAELDTAQREARNLST----ELFRLKNELEELKDQVEALRR 433
Query: 94 NIKNLAHNYSDAQVKVREATSN 115
KNL D ++ E N
Sbjct: 434 ENKNLQDEIHDLTDQLGEGGRN 455
>gnl|CDD|239622 cd03564, ANTH_AP180_CALM, ANTH domain family; composed of adaptor
protein 180 (AP180), clathrin assembly lymphoid myeloid
leukemia protein (CALM) and similar proteins. A set of
proteins previously designated as harboring an ENTH
domain in fact contains a highly similar, yet unique
module referred to as an AP180 N-terminal homology
(ANTH) domain. AP180 and CALM play important roles in
clathrin-mediated endocytosis. AP180 is a brain-specific
clathrin-binding protein which stimulates clathrin
assembly during the recycling of synaptic vesicles. The
ANTH domain is structurally similar to the VHS domain
and is composed of a superhelix of eight alpha helices.
ANTH domains bind both inositol phospholipids and
proteins, and contribute to the nucleation and formation
of clathrin coats on membranes. ANTH-bearing proteins
have recently been shown to function with adaptor
protein-1 and GGA adaptors at the trans-Golgi network,
which suggests that the ANTH domain is a universal
component of the machinery for clathrin-mediated
membrane budding.
Length = 117
Score = 27.2 bits (61), Expect = 2.8
Identities = 21/85 (24%), Positives = 36/85 (42%), Gaps = 3/85 (3%)
Query: 109 VREATSNDPWGPSSSLMSEIADLTYNV-VAFTEIMAMIWKRLNDSGKNWRHVYKALSLLE 167
V++ATS+D P + +I T + + + + +RL D NW V KAL LL
Sbjct: 5 VKKATSHDEAPPKDKHVRKIIAGTSSSPASIPSFASALSRRLLDR--NWVVVLKALILLH 62
Query: 168 YLIKTGSDKVTRIGGIFTHLIKTRS 192
L++ G + + +
Sbjct: 63 RLLREGHPSFLQELLSRRGWLNLSN 87
>gnl|CDD|218825 pfam05956, APC_basic, APC basic domain. This region of the APC
family of proteins is known as the basic domain. It
contains a high proportion of positively charged amino
acids and interacts with microtubules.
Length = 359
Score = 28.2 bits (62), Expect = 3.3
Identities = 16/39 (41%), Positives = 20/39 (51%)
Query: 61 RFARSASSGFGSEGSAMRRQREDIQEGVAGLRRNIKNLA 99
R A + SSG S+ S RRQ I+E LRR L+
Sbjct: 195 RMASAKSSGSESDRSGFRRQLTFIKESPGTLRRRRSELS 233
>gnl|CDD|214699 smart00503, SynN, Syntaxin N-terminal domain. Three-helix domain
that (in Sso1p) slows the rate of its reaction with the
SNAP-25 homologue Sec9p.
Length = 117
Score = 26.9 bits (60), Expect = 3.4
Identities = 27/110 (24%), Positives = 42/110 (38%), Gaps = 9/110 (8%)
Query: 4 QCKENIFLIQTLRD--FQYTEEGKDQGFNVREKAKALATLLGDEERLRNERARQLKARER 61
+ + NI I + EE +E + L L+ D +RL E +LK
Sbjct: 12 EIRANIQKISQNVAELQKLHEELLTPPDADKELREKLERLIDDIKRLAKEIRAKLKE--- 68
Query: 62 FARSASSGFGSEGSAMRRQREDIQEGVAGLRRNIKNLAHNYSDAQVKVRE 111
+ + GSA R R+ E LR+ K + + + Q K RE
Sbjct: 69 -LEKENLENRASGSASDRTRKAQTEK---LRKKFKEVMNEFQRLQRKYRE 114
>gnl|CDD|193409 pfam12936, Kri1_C, KRI1-like family C-terminal. The yeast member
of this family (Kri1p) is found to be required for 40S
ribosome biogenesis in the nucleolus. This is the
C-terminal domain of the family.
Length = 93
Score = 26.8 bits (60), Expect = 3.5
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 36 KALATLLGDEERLRNERARQLKARER 61
K LA EER ++++ KAR R
Sbjct: 61 KKLAPYRDKEERRKDKKKYGKKARLR 86
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. This family
represents the SMC protein of most bacteria. The smc
gene is often associated with scpB (TIGR00281) and scpA
genes, where scp stands for segregation and condensation
protein. SMC was shown (in Caulobacter crescentus) to be
induced early in S phase but present and bound to DNA
throughout the cell cycle [Cellular processes, Cell
division, DNA metabolism, Chromosome-associated
proteins].
Length = 1179
Score = 28.1 bits (63), Expect = 4.1
Identities = 22/93 (23%), Positives = 36/93 (38%), Gaps = 4/93 (4%)
Query: 12 IQTLRDFQYTEEGKDQGFNVREKAKALATLLGDEERLRNERARQLKARERFARSASSGFG 71
I+ L E K+ + E + L L + ERL E +L+ A A
Sbjct: 423 IEELLKKLEEAELKELQAELEELEEELEELQEELERLE-EALEELREELEEAEQALDAAE 481
Query: 72 SEGSAMRRQR---EDIQEGVAGLRRNIKNLAHN 101
E + ++ + E +QE + G +K L N
Sbjct: 482 RELAQLQARLDSLERLQENLEGFSEGVKALLKN 514
>gnl|CDD|216102 pfam00756, Esterase, Putative esterase. This family contains
Esterase D. However it is not clear if all members of
the family have the same function. This family is
related to the pfam00135 family.
Length = 245
Score = 27.4 bits (61), Expect = 4.2
Identities = 12/65 (18%), Positives = 23/65 (35%), Gaps = 1/65 (1%)
Query: 56 LKARERFARSAS-SGFGSEGSAMRRQREDIQEGVAGLRRNIKNLAHNYSDAQVKVREATS 114
LK + F +S S + ++M +D L+ N + ++ + T
Sbjct: 128 LKYPDLFGSVSSFSPILNPSNSMWGPEDDPAWQEGDPVLLAVALSANNTRLRIYLDVGTR 187
Query: 115 NDPWG 119
D G
Sbjct: 188 EDFLG 192
>gnl|CDD|235503 PRK05561, PRK05561, DNA topoisomerase IV subunit A; Validated.
Length = 742
Score = 27.8 bits (63), Expect = 4.5
Identities = 10/33 (30%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 32 REKAKALATLLGDEERLRNERARQLKA-RERFA 63
R++ L +L E +LR ++LKA ++F
Sbjct: 450 RKEIAELEAILASERKLRKLIKKELKADAKKFG 482
>gnl|CDD|148617 pfam07111, HCR, Alpha helical coiled-coil rod protein (HCR). This
family consists of several mammalian alpha helical
coiled-coil rod HCR proteins. The function of HCR is
unknown but it has been implicated in psoriasis in
humans and is thought to affect keratinocyte
proliferation.
Length = 739
Score = 27.7 bits (61), Expect = 5.1
Identities = 22/71 (30%), Positives = 37/71 (52%), Gaps = 2/71 (2%)
Query: 43 GDEERLR-NERARQLKARERFARSASSGFGSEGSAMRRQREDIQEGVAGLRRNIKNLAHN 101
G+EER R E A+QL+ + ++ + + G++ A R +++ E A LR+ +
Sbjct: 512 GEEERQRLAEVAQQLERELQESQESLASAGAQLEAARAGQQESTEEAASLRQELTQQQEV 571
Query: 102 YSDA-QVKVRE 111
Y A Q KV E
Sbjct: 572 YGQALQEKVAE 582
>gnl|CDD|131285 TIGR02230, ATPase_gene1, F0F1-ATPase subunit, putative. This
model represents a protein found encoded in F1F0-ATPase
operons in several genomes, including Methanosarcina
barkeri (archaeal) and Chlorobium tepidum (bacterial).
It is a small protein (about 100 amino acids) with long
hydrophic stretches and is presumed to be a subunit of
the enzyme [Energy metabolism, ATP-proton motive force
interconversion].
Length = 100
Score = 26.0 bits (57), Expect = 5.6
Identities = 16/45 (35%), Positives = 23/45 (51%)
Query: 30 NVREKAKALATLLGDEERLRNERARQLKARERFARSASSGFGSEG 74
N RE K A E+R+ ++ R+L+AR+ RS G G G
Sbjct: 2 NEREPEKLSAKDKPLEKRVGDKELRKLRARKNATRSIWEGLGMFG 46
>gnl|CDD|223562 COG0488, Uup, ATPase components of ABC transporters with duplicated
ATPase domains [General function prediction only].
Length = 530
Score = 27.2 bits (61), Expect = 5.7
Identities = 12/64 (18%), Positives = 29/64 (45%), Gaps = 2/64 (3%)
Query: 31 VREKAKALATLLGDEERLRNERARQLKARERFARSASSGFGSEGSAMRRQREDIQEGVAG 90
+ +KA+ L E+ + E A++ + R +AS ++ + ++ E ++ +A
Sbjct: 239 LEQKAERLRQEAAAYEKQQKELAKEQEWIRRGKAAASKAKKAK--SRIKRLEKLEARLAE 296
Query: 91 LRRN 94
R
Sbjct: 297 ERPV 300
>gnl|CDD|177408 PHA02579, 7, baseplate wedge subunit; Provisional.
Length = 1030
Score = 27.4 bits (61), Expect = 6.4
Identities = 17/63 (26%), Positives = 24/63 (38%), Gaps = 9/63 (14%)
Query: 101 NYSDAQVKVREATSNDPWGPSSSLMSEIADLTYNVVAFTEIMAMIWKRLNDSGKNWRHVY 160
NY + Q + E D + + + E + Y F M K ND G+ W Y
Sbjct: 172 NYHEIQGHI-EKVCKDI---NRTYLMESDGVLY---LFERFQPMA-KVSNDKGQTW-KYY 222
Query: 161 KAL 163
KA
Sbjct: 223 KAF 225
>gnl|CDD|197630 smart00288, VHS, Domain present in VPS-27, Hrs and STAM.
Unpublished observations. Domain of unknown function.
Length = 133
Score = 26.1 bits (58), Expect = 7.1
Identities = 19/67 (28%), Positives = 29/67 (43%), Gaps = 3/67 (4%)
Query: 112 ATSNDPWGPSSSLMSEIAD-LTYNVVAFTEIMAMIWKRLNDSGKNWRHVYKALSLLEYLI 170
ATS L+ EI D + + + ++ KRLN+ KN AL+LL+ +
Sbjct: 8 ATSPSLLEEDWELILEICDLINSTPDGPKDAVRLLKKRLNN--KNPHVALLALTLLDACV 65
Query: 171 KTGSDKV 177
K K
Sbjct: 66 KNCGSKF 72
>gnl|CDD|129223 TIGR00117, acnB, aconitate hydratase 2. Aconitate hydratase
(aconitase) is an enzyme of the TCA cycle. This model
describes aconitase 2, AcnB, which has weak similarity
to aconitase 1. It is found almost exclusively in the
Proteobacteria [Energy metabolism, TCA cycle].
Length = 844
Score = 26.8 bits (59), Expect = 8.1
Identities = 23/86 (26%), Positives = 34/86 (39%), Gaps = 8/86 (9%)
Query: 56 LKARERFARS-ASSGFGSEGSAMRRQREDIQEGVAGLRRNIKNL----AHNYSDAQVKVR 110
LK + F + AS+ + G ++ +E I E L NI L A Y D + R
Sbjct: 577 LKVEQAFELTDASAERSAAGCTIKLNKEPIIEY---LNSNIVLLKWMIAEGYGDRRTLER 633
Query: 111 EATSNDPWGPSSSLMSEIADLTYNVV 136
+ W + L+ AD Y V
Sbjct: 634 RIQGMEKWLANPELLEADADAEYAAV 659
>gnl|CDD|215573 PLN03098, LPA1, LOW PSII ACCUMULATION1; Provisional.
Length = 453
Score = 26.8 bits (59), Expect = 9.4
Identities = 25/88 (28%), Positives = 35/88 (39%), Gaps = 6/88 (6%)
Query: 6 KENIFLIQTLRDFQYTEEGKDQGFNVREKAKALATLLGDEERLRNERA---RQLKARERF 62
K + LI + + K +GF KA A +GD+ R + A LK +RF
Sbjct: 326 KRGVLLIPVVWGENKDPQPKKKGFGRSSKAAASLPSIGDDFEKRAQSAAAKSVLKGEKRF 385
Query: 63 ARSASSGFGSEGSAMRRQREDIQEGVAG 90
S E +R Q+E EGV
Sbjct: 386 KAEVVSPAEWE-RWIRDQQE--SEGVTP 410
>gnl|CDD|234342 TIGR03752, conj_TIGR03752, integrating conjugative element protein,
PFL_4705 family. Members of this protein family are
found occasionally on plasmids such as the Pseudomonas
putida toluene catabolic TOL plasmid pWWO_p085. Usually,
however, they are found on the bacterial main chromosome
in regions flanked by markers of conjugative transfer
and/or transposition [Mobile and extrachromosomal
element functions, Plasmid functions].
Length = 472
Score = 26.5 bits (59), Expect = 9.4
Identities = 18/84 (21%), Positives = 32/84 (38%), Gaps = 7/84 (8%)
Query: 30 NVREKAKALATLLGDEERLRNERARQLKARERFARSASSGFGSEGSAMRRQRE------- 82
V+E K LA L+ + E L+ E R K + + SE + ++ E
Sbjct: 67 EVKELRKRLAKLISENEALKAENERLQKREQSIDQQIQQAVQSETQELTKEIEQLKSERQ 126
Query: 83 DIQEGVAGLRRNIKNLAHNYSDAQ 106
+Q + L+R + + S
Sbjct: 127 QLQGLIDQLQRRLAGVLTGPSGGG 150
>gnl|CDD|239623 cd03565, VHS_Tom1, VHS domain family, Tom1 subfamily; The VHS
domain is an essential part of Tom1 (Target of myb1 -
retroviral oncogene) protein. The VHS domain has a
superhelical structure similar to the structure of the
ARM repeats and is present at the very N-termini of
proteins. It is a right-handed superhelix of eight alpha
helices. The VHS domain has been found in a number of
proteins, some of which have been implicated in
intracellular trafficking and sorting. The VHS domain of
the Tom1 protein is essential for the negative
regulation of Interleukin-1 and Tumor Necrosis
Factor-induced signaling pathways.
Length = 141
Score = 25.8 bits (57), Expect = 9.9
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 147 KRLNDSGKNWRHVYKALSLLEYLIK 171
KRLN KN + V L++LE +K
Sbjct: 45 KRLN-GNKNHKEVMLTLTVLETCVK 68
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 0.131 0.372
Gapped
Lambda K H
0.267 0.0712 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,824,371
Number of extensions: 913419
Number of successful extensions: 1058
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1044
Number of HSP's successfully gapped: 69
Length of query: 194
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 102
Effective length of database: 6,857,034
Effective search space: 699417468
Effective search space used: 699417468
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: 56 (25.4 bits)