RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14736
(85 letters)
>gnl|CDD|213374 cd12085, DD_cGKI-alpha, Dimerization/Docking domain of Cyclic
GMP-dependent Protein Kinase I alpha. Cyclic
GMP-dependent Protein Kinase I (PKG1 or cGKI) is a
Serine/Threonine Kinase (STK), catalyzing the transfer
of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. cGKI
exists as two splice variants, cGKI-alpha and
cGKI-beta. They contain an N-terminal regulatory domain
containing a dimerization/docking region and an
autoinhibitory pseudosubstrate region, two cGMP-binding
domains, and a C-terminal catalytic domain. Binding of
cGMP to both binding sites releases the inhibition of
the catalytic center by the pseudosubstrate region,
allowing autophosphorylation and activation of the
kinase. cGKI is a soluble protein expressed in all
smooth muscles, platelets, cerebellum, and kidney. It
is involved in the regulation of smooth muscle tone,
smooth cell proliferation, and platelet activation. The
dimerization/docking (D/D) domain is a
leucine/isoleucine zipper that mediates both
homodimerization and interaction with isotype-specific
G-kinase-anchoring proteins (GKAPs). The D/D domain of
the two variants (alpha and beta) differ, allowing for
their targeting to different subcellular compartments
and intracellular substrates. cGKI-alpha specifically
binds to myosin light chain phosphatase targeting
subunit (MYPT1) and the regulator of G-protein
signaling-2 (RGS-2). cGKI-alpha activates the
phosphatase activity of MYPT1, resulting in
vasorelaxation. It increases the activity of RGS-2
toward G proteins, with implications in the downstream
signaling for vasoconstrictive agents.
Length = 48
Score = 68.8 bits (169), Expect = 1e-17
Identities = 28/46 (60%), Positives = 40/46 (86%)
Query: 6 TVDEMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQSVFPY 51
+V+E+Q +LQAKE +IRELE+ ++ ++EEI +LRS LDKFQSVFP+
Sbjct: 3 SVEELQKLLQAKEERIRELEQLLQQRDEEIQELRSQLDKFQSVFPF 48
>gnl|CDD|213373 cd12083, DD_cGKI, Dimerization/Docking domain of Cyclic
GMP-dependent Protein Kinase I. Cyclic GMP-dependent
Protein Kinase I (PKG1 or cGKI) is a Serine/Threonine
Kinase (STK), catalyzing the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. cGKI exists as two
splice variants, cGKI-alpha and cGKI-beta. They contain
an N-terminal regulatory domain containing a
dimerization/docking region and an autoinhibitory
pseudosubstrate region, two cGMP-binding domains, and a
C-terminal catalytic domain. Binding of cGMP to both
binding sites releases the inhibition of the catalytic
center by the pseudosubstrate region, allowing
autophosphorylation and activation of the kinase. cGKI
is a soluble protein expressed in all smooth muscles,
platelets, cerebellum, and kidney. It is also expressed
at lower concentrations in other tissues. It is
involved in the regulation of smooth muscle tone,
smooth cell proliferation, and platelet activation. The
dimerization/docking (D/D) domain is a
leucine/isoleucine zipper that mediates both
homodimerization and interaction with isotype-specific
G-kinase-anchoring proteins (GKAPs). The D/D domain of
the two variants (alpha and beta) differ, allowing
their targeting to different subcellular compartments
and intracellular substrates.
Length = 48
Score = 61.4 bits (150), Expect = 1e-14
Identities = 22/45 (48%), Positives = 34/45 (75%)
Query: 7 VDEMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQSVFPY 51
++E L+ K+ +IRELE++++ ++EEI +LRS LDKFQSV P
Sbjct: 4 LEEKTEELRKKDERIRELEQELQEKDEEIQELRSQLDKFQSVLPP 48
>gnl|CDD|203913 pfam08336, P4Ha_N, Prolyl 4-Hydroxylase alpha-subunit, N-terminal
region. The members of this family are eukaryotic
proteins, and include all three isoforms of the prolyl
4-hydroxylase alpha subunit. This enzyme (EC:1.14.11.2)
is important in the post-translational modification of
collagen, as it catalyzes the formation of
4-hydroxyproline. In vertebrates, the complete enzyme
is an alpha2-beta2 tetramer; the beta-subunit is
identical to protein disulphide isomerase. The function
of the N-terminal region featured in this family does
not seem to be known.
Length = 134
Score = 30.3 bits (69), Expect = 0.059
Identities = 9/40 (22%), Positives = 24/40 (60%)
Query: 7 VDEMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQ 46
+ +MQ +L+ ++ I L++ ++ E++ L+ LD+ +
Sbjct: 3 ISQMQKLLELEKELIDNLDDYIEALEEKLDTLKRFLDELK 42
>gnl|CDD|222786 PHA00371, mat, maturation protein.
Length = 418
Score = 30.2 bits (68), Expect = 0.089
Identities = 14/36 (38%), Positives = 17/36 (47%), Gaps = 1/36 (2%)
Query: 39 RSHLDKFQSVFPY-HNPVSPTHMNNNINLARPRKQR 73
RS L F PY P S H+ + I L R R +R
Sbjct: 383 RSVLSTFPQPLPYVKTPFSSVHLIDAIALIRQRLKR 418
>gnl|CDD|213375 cd12086, DD_cGKI-beta, Dimerization/Docking domain of Cyclic
GMP-dependent Protein Kinase I beta. Cyclic
GMP-dependent Protein Kinase I (PKG1 or cGKI) is a
Serine/Threonine Kinase (STK), catalyzing the transfer
of the gamma-phosphoryl group from ATP to
serine/threonine residues on protein substrates. cGKI
exists as two splice variants, cGKI-alpha and
cGKI-beta. They contain an N-terminal regulatory domain
containing a dimerization/docking region and an
autoinhibitory pseudosubstrate region, two cGMP-binding
domains, and a C-terminal catalytic domain. Binding of
cGMP to both binding sites releases the inhibition of
the catalytic center by the pseudosubstrate region,
allowing autophosphorylation and activation of the
kinase. cGKI is a soluble protein expressed in all
smooth muscles, platelets, cerebellum, and kidney. It
is involved in the regulation of smooth muscle tone,
smooth cell proliferation, and platelet activation. The
dimerization/docking (D/D) domain is a
leucine/isoleucine zipper that mediates both
homodimerization and interaction with isotype-specific
G-kinase-anchoring proteins (GKAPs). The D/D domain of
the two variants (alpha and beta) differ, allowing for
their targeting to different subcellular compartments
and intracellular substrates. cGKI-beta binds
specifically to inositol triphosphate
receptor-associated PKG substrate (IRAG) and the
transcriptional regulator TFII-I. Phosphorylation of
IRAG by cGKI-beta contributes to smooth muscle
relaxation while phosphorylation of TFII-I modulates
its co-activator functions for serum response factor
and Smad transcription factors.
Length = 52
Score = 28.5 bits (64), Expect = 0.096
Identities = 12/35 (34%), Positives = 25/35 (71%)
Query: 14 LQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQSV 48
L+ ++ I+ELE+++ ++ I L++ LDK++SV
Sbjct: 15 LRKRDELIKELEQELDEKDALIQHLQNELDKYRSV 49
>gnl|CDD|217767 pfam03863, Phage_mat-A, Phage maturation protein.
Length = 399
Score = 29.0 bits (65), Expect = 0.22
Identities = 13/36 (36%), Positives = 16/36 (44%), Gaps = 1/36 (2%)
Query: 39 RSHLDKFQSVFPY-HNPVSPTHMNNNINLARPRKQR 73
RS F PY P S H+ + I L R R +R
Sbjct: 364 RSVTSAFPQPGPYVKTPFSSFHVLDAIALLRQRLKR 399
>gnl|CDD|191114 pfam04859, DUF641, Plant protein of unknown function (DUF641).
Plant protein of unknown function.
Length = 132
Score = 28.5 bits (64), Expect = 0.24
Identities = 12/38 (31%), Positives = 24/38 (63%)
Query: 6 TVDEMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLD 43
+ E +S+L+ E +++LE +V+ ++ EI LR L+
Sbjct: 82 EIQEQRSLLKTYEIMVKKLEAEVRAKDSEIDSLREKLE 119
Score = 26.9 bits (60), Expect = 0.80
Identities = 13/39 (33%), Positives = 25/39 (64%), Gaps = 4/39 (10%)
Query: 6 TVDEMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDK 44
V ++++ ++AK+S+I L EK+ EE++ S L+K
Sbjct: 96 MVKKLEAEVRAKDSEIDSLREKL----EELLVANSKLEK 130
>gnl|CDD|193185 pfam12709, Kinetocho_Slk19, Central kinetochore-associated. This
is a family of proteins integrally involved in the
central kinetochore. Slk19 is a yeast member and it may
play an important role in the timing of nuclear
migration. It may also participate, directly or
indirectly, in the maintenance of centromeric tensile
strength during mitotic stagnation, for instance during
activation of checkpoint controls, when cells need to
preserve nuclear integrity until cell cycle progression
can be resumed.
Length = 87
Score = 28.1 bits (63), Expect = 0.25
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 18 ESKIRELEEKVKVQNEEIVQLRSHLD 43
+ K+ ELE + K +EI QL+ LD
Sbjct: 48 QKKLDELELENKALKQEIEQLKKQLD 73
>gnl|CDD|218839 pfam05983, Med7, MED7 protein. This family consists of several
eukaryotic proteins which are homologues of the yeast
MED7 protein. Activation of gene transcription in
metazoans is a multi-step process that is triggered by
factors that recognise transcriptional enhancer sites in
DNA. These factors work with co-activators such as MED7
to direct transcriptional initiation by the RNA
polymerase II apparatus.
Length = 161
Score = 28.0 bits (63), Expect = 0.35
Identities = 13/34 (38%), Positives = 22/34 (64%)
Query: 15 QAKESKIRELEEKVKVQNEEIVQLRSHLDKFQSV 48
QA+ES I +EE++ + EEI +R L++ + V
Sbjct: 126 QARESLIMLMEEQLDEKREEIEAIRKVLEEVREV 159
>gnl|CDD|234487 TIGR04157, glyco_rSAM_CFB, glycosyltransferase, GG-Bacteroidales
peptide system. Members of this protein family are
predicted glycosyltransferases that occur in conserved
gene neighborhoods in various members of the
Bacteroidales. These neighborhoods feature a radical SAM
enzyme predicted to act in peptide modification (family
TIGR04148), peptides from family TIGR04149 with a
characteristic GG cleavage motif, and several other
proteins.
Length = 406
Score = 28.4 bits (64), Expect = 0.35
Identities = 12/38 (31%), Positives = 21/38 (55%), Gaps = 3/38 (7%)
Query: 7 VDEMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDK 44
V ++SIL+ +E+K ELE+ +K EE + +
Sbjct: 135 VSLLRSILRKEETKRSELEKLIK---EEFEREKEMFQL 169
>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 = 28.5 bits (64), Expect = 0.36
Identities = 13/43 (30%), Positives = 25/43 (58%)
Query: 7 VDEMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQSVF 49
++E + L E++I ELE +++ EE+ LR LD+ ++
Sbjct: 770 LEEAEEELAEAEAEIEELEAQIEQLKEELKALREALDELRAEL 812
Score = 26.6 bits (59), Expect = 1.7
Identities = 11/39 (28%), Positives = 21/39 (53%)
Query: 8 DEMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQ 46
+E+ L+ ESK EL +++ E++ QL L+ +
Sbjct: 897 EELSEELRELESKRSELRRELEELREKLAQLELRLEGLE 935
Score = 25.8 bits (57), Expect = 3.1
Identities = 15/70 (21%), Positives = 32/70 (45%), Gaps = 15/70 (21%)
Query: 7 VDEMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQSVFPYHNPVSPTHMNNNINL 66
++E+++ L+ ES++ ELEE+++ ++ QL + +NN I
Sbjct: 360 LEELEAELEELESRLEELEEQLETLRSKVAQLELQIAS---------------LNNEIER 404
Query: 67 ARPRKQRAQG 76
R +R +
Sbjct: 405 LEARLERLED 414
>gnl|CDD|100796 PRK01156, PRK01156, chromosome segregation protein; Provisional.
Length = 895
Score = 28.3 bits (63), Expect = 0.40
Identities = 13/30 (43%), Positives = 20/30 (66%)
Query: 18 ESKIRELEEKVKVQNEEIVQLRSHLDKFQS 47
E KIRE+E +VK +E+IV L+ + +S
Sbjct: 482 EEKIREIEIEVKDIDEKIVDLKKRKEYLES 511
>gnl|CDD|173611 PTZ00421, PTZ00421, coronin; Provisional.
Length = 493
Score = 27.9 bits (62), Expect = 0.56
Identities = 13/38 (34%), Positives = 24/38 (63%)
Query: 11 QSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQSV 48
+ IL + +++ L EK++ Q+EEI + R L K +S+
Sbjct: 445 EGILDERLGRLQALSEKLRTQHEEIKRCREALQKKESI 482
>gnl|CDD|217052 pfam02465, FliD_N, Flagellar hook-associated protein 2
C-terminus. The flagellar hook-associated protein 2
(HAP2 or FliD) forms the distal end of the flagella,
and plays a role in mucin specific adhesion of the
bacteria. This alignment covers the N-terminal region
of this family of proteins.
Length = 99
Score = 27.1 bits (61), Expect = 0.61
Identities = 9/41 (21%), Positives = 21/41 (51%)
Query: 7 VDEMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQS 47
VD++ + +A ++ + + K++ + QL+S L Q
Sbjct: 10 VDQLMAAERAPLDRLEQQKTKLEAKLSAYGQLKSALSTLQD 50
>gnl|CDD|129694 TIGR00606, rad50, rad50. All proteins in this family for which
functions are known are involvedin recombination,
recombinational repair, and/or non-homologous end
joining.They are components of an exonuclease complex
with MRE11 homologs. This family is distantly related to
the SbcC family of bacterial proteins.This family is
based on the phylogenomic analysis of JA Eisen (1999,
Ph.D. Thesis, Stanford University).
Length = 1311
Score = 27.7 bits (61), Expect = 0.62
Identities = 13/44 (29%), Positives = 27/44 (61%)
Query: 11 QSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQSVFPYHNP 54
QSI+ KE +I EL K++ N +I +L++ +++ +++ P
Sbjct: 736 QSIIDLKEKEIPELRNKLQKVNRDIQRLKNDIEEQETLLGTIMP 779
>gnl|CDD|225488 COG2937, PlsB, Glycerol-3-phosphate O-acyltransferase [Lipid
metabolism].
Length = 810
Score = 27.4 bits (61), Expect = 0.87
Identities = 18/53 (33%), Positives = 23/53 (43%), Gaps = 14/53 (26%)
Query: 28 VKVQNEEIVQL-------------RSHLDK-FQSVFPYHNPVSPTHMNNNINL 66
+VQN E +L RSH+D S YHN + P H+ INL
Sbjct: 281 DEVQNAERRRLALDGHEIVYVPCHRSHIDYLLLSYVLYHNGLVPPHIAAGINL 333
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 27.1 bits (61), Expect = 0.88
Identities = 10/30 (33%), Positives = 18/30 (60%)
Query: 18 ESKIRELEEKVKVQNEEIVQLRSHLDKFQS 47
E +IR+LE K++ E +L L++ +S
Sbjct: 14 EEQIRQLELKLRDLEAENEKLERELERLKS 43
Score = 24.8 bits (55), Expect = 5.8
Identities = 13/31 (41%), Positives = 22/31 (70%), Gaps = 2/31 (6%)
Query: 18 ESKIRELE-EKVKVQNEEIVQLRSHLDKFQS 47
E K+R+LE E K++ E+ +L+S L+K +S
Sbjct: 21 ELKLRDLEAENEKLE-RELERLKSELEKLKS 50
>gnl|CDD|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated.
Length = 646
Score = 27.2 bits (61), Expect = 1.0
Identities = 7/36 (19%), Positives = 22/36 (61%)
Query: 12 SILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQS 47
+++ E ++ ++E+++K EEI +L + + + +
Sbjct: 86 ELIKDVEEELEKIEKEIKELEEEISELENEIKELEQ 121
Score = 24.5 bits (54), Expect = 8.9
Identities = 5/38 (13%), Positives = 18/38 (47%)
Query: 11 QSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQSV 48
+++ + ++ E+E++ + EE+ +L +
Sbjct: 214 SELIREIKEELEEIEKERESLLEELKELAKKYLEELLA 251
>gnl|CDD|204414 pfam10211, Ax_dynein_light, Axonemal dynein light chain. Axonemal
dynein light chain proteins play a dynamic role in
flagellar and cilia motility. Eukaryotic cilia and
flagella are complex organelles consisting of a core
structure, the axoneme, which is composed of nine
microtubule doublets forming a cylinder that surrounds a
pair of central singlet microtubules. This
ultra-structural arrangement seems to be one of the most
stable micro-tubular assemblies known and is responsible
for the flagellar and ciliary movement of a large number
of organisms ranging from protozoan to mammals. This
light chain interacts directly with the N-terminal half
of the heavy chains.
Length = 189
Score = 26.8 bits (60), Expect = 1.3
Identities = 6/36 (16%), Positives = 16/36 (44%)
Query: 5 HTVDEMQSILQAKESKIRELEEKVKVQNEEIVQLRS 40
E++ ++ E + ELE++V ++ +
Sbjct: 120 QGKSELEQEIKKLEEEKEELEKRVAELEAKLEAIEK 155
>gnl|CDD|227514 COG5187, RPN7, 26S proteasome regulatory complex component,
contains PCI domain [Posttranslational modification,
protein turnover, chaperones].
Length = 412
Score = 26.4 bits (58), Expect = 1.6
Identities = 9/25 (36%), Positives = 18/25 (72%)
Query: 10 MQSILQAKESKIRELEEKVKVQNEE 34
M ++L+ E KI EL+E+++ + E+
Sbjct: 84 MNTLLKKNEEKIEELDERIREKEED 108
>gnl|CDD|149411 pfam08340, DUF1732, Domain of unknown function (DUF1732). This
domain of unknown function is often found at the
C-terminus of bacterial proteins, many of which are
hypothetical, including proteins of the YicC family
which have pfam03755 at the N-terminus. These include a
protein important in the stationary phase of growth,
and required for growth at high temperature. Structural
modelling suggests this domain may bind nucleic acids.
Length = 86
Score = 25.8 bits (58), Expect = 1.7
Identities = 7/17 (41%), Positives = 14/17 (82%)
Query: 32 NEEIVQLRSHLDKFQSV 48
EE+ +L+SHL++F+ +
Sbjct: 14 TEELDRLKSHLEQFREL 30
>gnl|CDD|215204 PLN02356, PLN02356, phosphateglycerate kinase.
Length = 423
Score = 26.5 bits (58), Expect = 1.8
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 54 PVSPTHMNNNINLARPRKQRAQGISAEH 81
PVS TH ++ +N+AR R A ++++
Sbjct: 158 PVSITHKDHYVNIARRRALEANELASKR 185
>gnl|CDD|221952 pfam13166, AAA_13, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins. This family includes the
PrrC protein that is thought to be the active component
of the anticodon nuclease.
Length = 713
Score = 26.1 bits (58), Expect = 2.2
Identities = 10/41 (24%), Positives = 26/41 (63%)
Query: 9 EMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQSVF 49
E+++ ++ + ++++LEEK++ EI + L+K ++ F
Sbjct: 92 EIEAQIEELKKELKKLEEKIEQLEAEIEKKEEELEKAKNKF 132
>gnl|CDD|220719 pfam10368, YkyA, Putative cell-wall binding lipoprotein. YkyA is a
family of proteins containing a lipoprotein signal and a
hydrolase domain. It is similar to cell wall binding
proteins and might also be recognisable by a host immune
defence system. It is thus likely to belong to pathways
important for pathogenicity.
Length = 205
Score = 26.2 bits (58), Expect = 2.4
Identities = 11/37 (29%), Positives = 22/37 (59%)
Query: 9 EMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKF 45
E+ L+ K+ ++EL+EK+K N+ +++ KF
Sbjct: 148 ELYEYLKDKDLTLKELDEKIKAVNQSYEKIQKAKKKF 184
>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal 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. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and
C-terminal domains of this protein are well conserved,
but the central hinge region is skewed in composition
and highly divergent [Cellular processes, Cell division,
DNA metabolism, Chromosome-associated proteins].
Length = 1164
Score = 26.2 bits (58), Expect = 2.4
Identities = 9/41 (21%), Positives = 23/41 (56%)
Query: 7 VDEMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQS 47
+E++ L+ E+ +R+LE ++ +E +L + L + +
Sbjct: 863 KEELEEELEELEAALRDLESRLGDLKKERDELEAQLRELER 903
>gnl|CDD|238361 cd00677, S15_NS1_EPRS_RNA-bind, S15/NS1/EPRS_RNA-binding domain.
This short domain consists of a helix-turn-helix
structure, which can bind to several types of RNA. It
is found in the ribosomal protein S15, the influenza A
viral nonstructural protein (NSA) and in several
eukaryotic aminoacyl tRNA synthetases (aaRSs), where it
occurs as a single or a repeated unit. It is involved
in both protein-RNA interactions by binding tRNA and
protein-protein interactions in the formation of
tRNA-synthetases into multienzyme complexes. While this
domain lacks significant sequence similarity between
the subgroups in which it is found, they share similar
electrostatic surface potentials and thus are likely to
bind to RNA via the same mechanism.
Length = 46
Score = 24.4 bits (54), Expect = 2.5
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 25 EEKVKVQNEEIVQLRSHLDKF 45
E ++ + E I L+ HL K
Sbjct: 1 EVQIALLTERIRNLKEHLAKN 21
>gnl|CDD|216531 pfam01496, V_ATPase_I, V-type ATPase 116kDa subunit family. This
family consists of the 116kDa V-type ATPase (vacuolar
(H+)-ATPases) subunits, as well as V-type ATP synthase
subunit i. The V-type ATPases family are proton pumps
that acidify intracellular compartments in eukaryotic
cells for example yeast central vacuoles,
clathrin-coated and synaptic vesicles. They have
important roles in membrane trafficking processes. The
116kDa subunit (subunit a) in the V-type ATPase is part
of the V0 functional domain responsible for proton
transport. The a subunit is a transmembrane glycoprotein
with multiple putative transmembrane helices it has a
hydrophilic amino terminal and a hydrophobic carboxy
terminal. It has roles in proton transport and assembly
of the V-type ATPase complex. This subunit is encoded by
two homologous gene in yeast VPH1 and STV1.
Length = 707
Score = 25.8 bits (57), Expect = 2.7
Identities = 13/44 (29%), Positives = 25/44 (56%)
Query: 7 VDEMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQSVFP 50
+ E++ L++ E +I ELEE + V +EE L +L++ +
Sbjct: 83 IKEVEENLESLEKEINELEEWLNVLDEEKSFLDENLEELSELSN 126
>gnl|CDD|236993 PRK11820, PRK11820, hypothetical protein; Provisional.
Length = 288
Score = 25.5 bits (57), Expect = 3.3
Identities = 7/17 (41%), Positives = 13/17 (76%)
Query: 32 NEEIVQLRSHLDKFQSV 48
EE+ +L+SHL +F+ +
Sbjct: 216 AEELDRLKSHLKEFREI 232
>gnl|CDD|213356 cd12822, TmCorA-like, Thermotoga maritima CorA-like family. This
family belongs to the MIT superfamily of essential
membrane proteins involved in transporting divalent
cations (uptake or efflux) across membranes. Members of
the Thermotoga maritima CorA_like family are found in
all three kingdoms of life. It is a functionally diverse
family, in addition to the CorA Co2+ transporter from
the hyperthermophilic Thermotoga maritima, it includes
three Saccharomyces cerevisiae members: two plasma
membrane proteins, the Mg2+ transporter Alr1p/Swc3p and
the putative Mg2+ transporter, Alr2p, and the vacuole
membrane protein Mnr2p, a putative Mg2+ transporter.
Thermotoga maritima CorA forms funnel-shaped
homopentamers, the tip of the funnel is formed from two
C-terminal transmembrane (TM) helices from each monomer,
and the large opening of the funnel from the N-terminal
cytoplasmic domains. The GMN signature motif of the MIT
superfamily occurs just after TM1, mutation within this
motif is known to abolish Mg2+ transport by Alr1p.
Natural variants in this signature sequence may be
associated with the transport of different divalent
cations. The functional diversity of the MIT superfamily
may also be due to minor structural differences
regulating gating, substrate selection, and transport.
Length = 289
Score = 25.6 bits (57), Expect = 3.3
Identities = 13/54 (24%), Positives = 23/54 (42%), Gaps = 5/54 (9%)
Query: 7 VDEMQSILQAKESKIRELEEKV-----KVQNEEIVQLRSHLDKFQSVFPYHNPV 55
VD IL E ++ ELE+++ + E+ LR L + + + V
Sbjct: 116 VDSYFPILDELEDRLDELEDEILEEPRREVLRELFALRRELLRLRRILSPQREV 169
>gnl|CDD|223092 COG0013, AlaS, Alanyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 879
Score = 25.7 bits (57), Expect = 3.4
Identities = 10/43 (23%), Positives = 21/43 (48%), Gaps = 3/43 (6%)
Query: 9 EMQSILQAKES---KIRELEEKVKVQNEEIVQLRSHLDKFQSV 48
E+ S+L+ K+ L E++K +E+ +L+ L +
Sbjct: 719 EIASLLKVPPELLPKVERLLEELKELEKELERLKKKLAAAELA 761
>gnl|CDD|224308 COG1390, NtpE, Archaeal/vacuolar-type H+-ATPase subunit E [Energy
production and conversion].
Length = 194
Score = 25.4 bits (56), Expect = 3.7
Identities = 7/29 (24%), Positives = 16/29 (55%)
Query: 8 DEMQSILQAKESKIRELEEKVKVQNEEIV 36
++ IL+ E + E+ E+ + + E+I
Sbjct: 6 KLIKKILREAEEEAEEILEEAREEAEKIK 34
>gnl|CDD|203679 pfam07544, Med9, RNA polymerase II transcription mediator complex
subunit 9. This family of Med9 proteins is conserved
in yeasts. It forms part of the middle region of
Mediator. Med9 has two functional domains. The
species-specific amino-terminal half (aa 1-63) plays a
regulatory role in transcriptional regulation, whereas
this well-conserved carboxy-terminal half (aa 64-149)
has a more fundamental function involved in direct
binding to the amino-terminal portions of Med4 and Med7
and the assembly of Med9 into the Middle module. Also,
some unidentified factor(s) in med9 extracts may impact
the binding of TFIID to the promoter.
Length = 83
Score = 24.9 bits (55), Expect = 3.9
Identities = 8/37 (21%), Positives = 21/37 (56%)
Query: 4 VHTVDEMQSILQAKESKIRELEEKVKVQNEEIVQLRS 40
V + + ++ +E++I ELEE++ + E + + +
Sbjct: 44 VEELPGISRSVEEQEAEIEELEEQIARKREVLQKFKE 80
>gnl|CDD|189476 pfam00261, Tropomyosin, Tropomyosin.
Length = 237
Score = 25.3 bits (56), Expect = 4.1
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 16 AKESKIRELEEKVKVQNEEIVQL 38
A ESKI ELEE++KV + L
Sbjct: 138 AAESKIVELEEELKVVGNNLKSL 160
>gnl|CDD|234141 TIGR03185, DNA_S_dndD, DNA sulfur modification protein DndD. This
model describes the DndB protein encoded by an operon
associated with a sulfur-containing modification to DNA.
The operon is sporadically distributed in bacteria, much
like some restriction enzyme operons. DndD is described
as a putative ATPase. The small number of examples known
so far include species from among the Firmicutes,
Actinomycetes, Proteobacteria, and Cyanobacteria [DNA
metabolism, Restriction/modification].
Length = 650
Score = 25.4 bits (56), Expect = 4.3
Identities = 12/38 (31%), Positives = 24/38 (63%)
Query: 9 EMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQ 46
+ S ++A E++++E EK + +EI LR+ L++ Q
Sbjct: 206 SILSEIEALEAELKEQSEKYEDLAQEIAHLRNELEEAQ 243
>gnl|CDD|213360 cd12826, EcCorA_ZntB-like_u1, uncharacterized bacterial subfamily
of the Escherichia coli CorA-Salmonella typhimurium ZntB
family. A uncharacterized subfamily of the Escherichia
coli CorA-Salmonella typhimurium ZntB (EcCorA-ZntB_like)
family of the MIT superfamily of essential membrane
proteins involved in transporting divalent cations
(uptake or efflux) across membranes. The
EcCorA-ZntB_like family includes the Mg2+ transporters
Escherichia coli and Salmonella typhimurium CorAs, which
can also transport Co2+, and Ni2+. Structures of the
intracellular domain of EcCorA-ZntB_like family members,
Vibrio parahaemolyticus and Salmonella typhimurium ZntB,
form funnel-shaped homopentamers, the tip of the funnel
is formed from two C-terminal transmembrane (TM) helices
from each monomer, and the large opening of the funnel
from the N-terminal cytoplasmic domains. The GMN
signature motif of the MIT superfamily occurs just after
TM1, mutation within this motif is known to abolish Mg2+
transport through Salmonella typhimurium CorA. Natural
variants such as GVN and GIN, as in some ZntB family
proteins, may be associated with the transport of
different divalent cations, such as zinc and cadmium.
The functional diversity of MIT transporters may also be
due to minor structural differences regulating gating,
substrate selection, and transport.
Length = 281
Score = 25.2 bits (56), Expect = 4.5
Identities = 12/41 (29%), Positives = 21/41 (51%), Gaps = 5/41 (12%)
Query: 7 VDEMQSILQAKESKIRELEEKVKVQ-----NEEIVQLRSHL 42
+ + L+ E K+ ELEE++ NE I+++R L
Sbjct: 108 IKDDLEYLEKYEEKLEELEEEILDGKLKNFNERILKIRKEL 148
>gnl|CDD|219737 pfam08172, CASP_C, CASP C terminal. This domain is the C-terminal
region of the CASP family of proteins. It is a Golgi
membrane protein which is thought to have a role in
vesicle transport.
Length = 245
Score = 25.1 bits (55), Expect = 4.6
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 19 SKIRELEEKVKVQNEEIVQLRSHLDKFQ 46
+ ELEE+++ QN+ I LR L+ +
Sbjct: 93 KRNTELEEELRKQNQTISSLRRELESLK 120
>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor
protein; Reviewed.
Length = 782
Score = 25.2 bits (56), Expect = 4.7
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 9 EMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDK 44
E +++L+ E ELEEK + EE +L +K
Sbjct: 538 EAEALLKEAEKLKEELEEKKEKLQEEEDKLLEEAEK 573
>gnl|CDD|227250 COG4913, COG4913, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 1104
Score = 25.4 bits (55), Expect = 4.7
Identities = 7/36 (19%), Positives = 18/36 (50%)
Query: 11 QSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQ 46
++ L A +++ + LE + + + E L+ L +
Sbjct: 697 KAALDAAQTRQKVLERQYQQEVTECAGLKKDLKRAA 732
>gnl|CDD|225638 COG3096, MukB, Uncharacterized protein involved in chromosome
partitioning [Cell division and chromosome
partitioning].
Length = 1480
Score = 25.2 bits (55), Expect = 4.8
Identities = 15/71 (21%), Positives = 30/71 (42%)
Query: 2 GTVHTVDEMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQSVFPYHNPVSPTHMN 61
G +E++++ Q E+ I L + V E+ + LR ++ QS +P +
Sbjct: 547 GKNLDAEELEALHQELEALIESLSDSVSNAREQRMALRQEQEQLQSRIQSLMQRAPVWLA 606
Query: 62 NNINLARPRKQ 72
L + +Q
Sbjct: 607 AQNALEQLSEQ 617
>gnl|CDD|133382 cd01107, HTH_BmrR, Helix-Turn-Helix DNA binding domain of the BmrR
transcription regulator. Helix-turn-helix (HTH)
multidrug-efflux transporter transcription regulator,
BmrR and YdfL of Bacillus subtilis, and related
proteins; N-terminal domain. Bmr is a membrane protein
which causes the efflux of a variety of toxic substances
and antibiotics. BmrR is comprised of two distinct
domains that harbor a regulatory (effector-binding) site
and an active (DNA-binding) site. The conserved
N-terminal domain contains a winged HTH motif that
mediates DNA binding, while the C-terminal domain binds
coactivating, toxic compounds. BmrR shares the
N-terminal DNA binding domain with other transcription
regulators of the MerR superfamily that promote
transcription by reconfiguring the spacer between the
-35 and -10 promoter elements.
Length = 108
Score = 24.8 bits (55), Expect = 5.0
Identities = 9/39 (23%), Positives = 18/39 (46%), Gaps = 3/39 (7%)
Query: 5 HTVDEMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLD 43
DE++ +L+ K+ ELE +++ + L L
Sbjct: 71 DNDDELRKLLR---EKLAELEAEIEELQRILRLLEDRLK 106
>gnl|CDD|149682 pfam08702, Fib_alpha, Fibrinogen alpha/beta chain family.
Fibrinogen is a protein involved in platelet aggregation
and is essential for the coagulation of blood. This
domain forms part of the central coiled coiled region of
the protein which is formed from two sets of three
non-identical chains (alpha, beta and gamma).
Length = 146
Score = 25.0 bits (55), Expect = 5.4
Identities = 9/34 (26%), Positives = 21/34 (61%)
Query: 10 MQSILQAKESKIRELEEKVKVQNEEIVQLRSHLD 43
+++ + +ES+IR L+E ++ +I +L +D
Sbjct: 95 LETKINTQESQIRVLQEVLRSNRSKIQRLEVDID 128
>gnl|CDD|216088 pfam00730, HhH-GPD, HhH-GPD superfamily base excision DNA repair
protein. This family contains a diverse range of
structurally related DNA repair proteins. The
superfamily is called the HhH-GPD family after its
hallmark Helix-hairpin-helix and Gly/Pro rich loop
followed by a conserved aspartate. This includes
endonuclease III, EC:4.2.99.18 and MutY an A/G-specific
adenine glycosylase, both have a C terminal 4Fe-4S
cluster. The family also includes 8-oxoguanine DNA
glycosylases. The methyl-CPG binding protein MBD4 also
contains a related domain that is a thymine DNA
glycosylase. The family also includes
DNA-3-methyladenine glycosylase II EC:3.2.2.21 and
other members of the AlkA family.
Length = 144
Score = 24.6 bits (54), Expect = 5.6
Identities = 9/44 (20%), Positives = 22/44 (50%), Gaps = 4/44 (9%)
Query: 11 QSILQAKESKIRELEEKVKVQN---EEIVQL-RSHLDKFQSVFP 50
+ + +A E ++REL + + + I +L R ++ + + P
Sbjct: 31 EDLAEADEEELRELIKGLGFYRRKAKYIKELARILVEGYLGLVP 74
>gnl|CDD|234701 PRK00252, alaS, alanyl-tRNA synthetase; Reviewed.
Length = 865
Score = 25.0 bits (56), Expect = 6.2
Identities = 6/24 (25%), Positives = 14/24 (58%)
Query: 14 LQAKESKIRELEEKVKVQNEEIVQ 37
L +E+ ++EL +K + E+ +
Sbjct: 696 LNEQEALLKELAALLKAKPSELPE 719
>gnl|CDD|222563 pfam14131, DUF4298, Domain of unknown function (DUF4298). This
family of proteins is functionally uncharacterized.
This family of proteins is found in bacteria and
eukaryotes. Proteins in this family are typically
between 94 and 105 amino acids in length. There are two
completely conserved residues (Y and D) that may be
functionally important.
Length = 90
Score = 24.2 bits (53), Expect = 6.3
Identities = 11/37 (29%), Positives = 20/37 (54%), Gaps = 3/37 (8%)
Query: 7 VDEMQSILQAKESKIRELE---EKVKVQNEEIVQLRS 40
+DEM+ I + +LE E++K E+ +LR+
Sbjct: 2 IDEMEEIYNRFSELLAKLEEALEQLKEAQEDYRELRA 38
>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional.
Length = 880
Score = 24.6 bits (54), Expect = 6.9
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 9 EMQSILQAKESKIRELEEKVK 29
E++ ++ + +I ELEEKVK
Sbjct: 263 ELEERIEELKKEIEELEEKVK 283
>gnl|CDD|219934 pfam08614, ATG16, Autophagy protein 16 (ATG16). Autophagy is a
ubiquitous intracellular degradation system for
eukaryotic cells. During autophagy, cytoplasmic
components are enclosed in autophagosomes and delivered
to lysosomes/vacuoles. ATG16 (also known as Apg16) has
been shown to be bind to Apg5 and is required for the
function of the Apg12p-Apg5p conjugate in the yeast
autophagy pathway.
Length = 194
Score = 24.8 bits (54), Expect = 7.1
Identities = 10/42 (23%), Positives = 25/42 (59%)
Query: 5 HTVDEMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQ 46
T+ E++S + + E++IR+L E+++ + ++ L+ L
Sbjct: 116 KTIAELRSEITSLETEIRDLREELQEKEKDNETLQDELISLN 157
>gnl|CDD|235316 PRK04863, mukB, cell division protein MukB; Provisional.
Length = 1486
Score = 24.5 bits (54), Expect = 7.5
Identities = 8/31 (25%), Positives = 14/31 (45%)
Query: 14 LQAKESKIRELEEKVKVQNEEIVQLRSHLDK 44
L+ + ELE + + Q RS L++
Sbjct: 839 LRQLNRRRVELERALADHESQEQQQRSQLEQ 869
>gnl|CDD|225471 COG2919, COG2919, Septum formation initiator [Cell division and
chromosome partitioning].
Length = 117
Score = 24.2 bits (53), Expect = 7.7
Identities = 8/43 (18%), Positives = 19/43 (44%)
Query: 2 GTVHTVDEMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDK 44
V ++Q + A+++++ +L + EI L+ D
Sbjct: 47 NGAADVLQLQRQIAAQQAELEKLSARNTALEAEIKDLKDGRDY 89
>gnl|CDD|220663 pfam10266, Strumpellin, Hereditary spastic paraplegia protein
strumpellin. This is a family of proteins conserved
from plants to humans, in which two closely situated
point mutations in the human protein lead to the
condition of hereditary spastic paraplegia. Strumpellin
contains one known domain called a spectrin repeat that
consists of three alpha-helices of a characteristic
length wrapped in a left-handed coiled coil. The
spectrin proteins have multiple copies of this repeat,
which can then form multimers in the cell. Spectrin
associates with the cell membrane via spectrin repeats
in the ankyrin protein. The spectrin repeat is a
structural platform for cytoskeletal protein assemblies.
Length = 1077
Score = 24.6 bits (54), Expect = 7.8
Identities = 8/45 (17%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 5 HTVDEMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQSVF 49
HT ++ + ++R+L K ++E++QL + + +
Sbjct: 352 HTSRSAEAASNESQKQVRDLILY-KFSDDELLQLLLNTAQLEFTL 395
>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 = 24.6 bits (54), Expect = 7.9
Identities = 9/38 (23%), Positives = 17/38 (44%)
Query: 6 TVDEMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLD 43
V+E Q + ++ E + E+ +LRS L+
Sbjct: 589 QVEEEQRAREDAREQLAVAERRATALEAELEELRSALE 626
>gnl|CDD|218661 pfam05622, HOOK, HOOK protein. This family consists of several
HOOK1, 2 and 3 proteins from different eukaryotic
organisms. The different members of the human gene
family are HOOK1, HOOK2 and HOOK3. Different domains
have been identified in the three human HOOK proteins,
and it was demonstrated that the highly conserved
NH2-domain mediates attachment to microtubules, whereas
the central coiled-coil motif mediates homodimerisation
and the more divergent C-terminal domains are involved
in binding to specific organelles (organelle-binding
domains). It has been demonstrated that endogenous HOOK3
binds to Golgi membranes, whereas both HOOK1 and HOOK2
are localised to discrete but unidentified cellular
structures. In mice the Hook1 gene is predominantly
expressed in the testis. Hook1 function is necessary for
the correct positioning of microtubular structures
within the haploid germ cell. Disruption of Hook1
function in mice causes abnormal sperm head shape and
fragile attachment of the flagellum to the sperm head.
Length = 713
Score = 24.8 bits (54), Expect = 8.0
Identities = 8/23 (34%), Positives = 16/23 (69%)
Query: 7 VDEMQSILQAKESKIRELEEKVK 29
+ E+++ LQ K+ +R +EE+ K
Sbjct: 578 IAELEAALQKKDEDMRAMEERYK 600
Score = 24.4 bits (53), Expect = 9.4
Identities = 10/38 (26%), Positives = 24/38 (63%)
Query: 9 EMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQ 46
E+Q +L+ + ELE ++++ N+ I++L+ ++ Q
Sbjct: 485 ELQQLLEDANRRNNELETQLRLANQRILELQQQVEDLQ 522
>gnl|CDD|202833 pfam03962, Mnd1, Mnd1 family. This family of proteins includes
MND1 from S. cerevisiae. The mnd1 protein forms a
complex with hop2 to promote homologous chromosome
pairing and meiotic double-strand break repair.
Length = 188
Score = 24.5 bits (54), Expect = 8.2
Identities = 5/35 (14%), Positives = 22/35 (62%)
Query: 14 LQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQSV 48
L ++++ +L+++++ + I +L++ ++K +
Sbjct: 64 LNKLKTRLEKLKKELEELKQRIAELQAQIEKLKKG 98
>gnl|CDD|225288 COG2433, COG2433, Uncharacterized conserved protein [Function
unknown].
Length = 652
Score = 24.7 bits (54), Expect = 8.3
Identities = 6/31 (19%), Positives = 20/31 (64%)
Query: 14 LQAKESKIRELEEKVKVQNEEIVQLRSHLDK 44
++A++ +I LE++++ + + + +L L +
Sbjct: 476 IRARDRRIERLEKELEEKKKRVEELERKLAE 506
>gnl|CDD|198438 cd10288, prolactin_like, Prolactin (PRL or PRL1), chorionic
somatomammotropin, and related pituitary gland hormones.
Prolactin is primarily responsible for stimulating milk
production and breast development in mammals. Aside from
roles in reproduction, various functions have been
attributed to prolactin, more than for other pituitary
gland hormones combined. These are roles in growth and
development, metamorphosis, metabolism of lipids,
carbohydrates, and steroids, brain biochemistry and even
immunoregulation, among others. Most of these roles are
poorly understood, but it has become clear that many
prolactin-like hormones are actually produced in the
placenta and not the pituitary.
Length = 199
Score = 24.5 bits (54), Expect = 8.7
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 3/29 (10%)
Query: 5 HTVDEMQSILQAKE---SKIRELEEKVKV 30
H V E+ S+ A + SK +E+EEK K
Sbjct: 97 HLVTELSSMKGAPDTILSKAKEIEEKNKE 125
>gnl|CDD|218602 pfam05478, Prominin, Prominin. The prominins are an emerging
family of proteins that among the multispan membrane
proteins display a novel topology. Mouse prominin and
human prominin (mouse)-like 1 (PROML1) are predicted to
contain five membrane spanning domains, with an
N-terminal domain exposed to the extracellular space
followed by four, alternating small cytoplasmic and
large extracellular, loops and a cytoplasmic C-terminal
domain. The exact function of prominin is unknown
although in humans defects in PROM1, the gene coding for
prominin, cause retinal degeneration.
Length = 807
Score = 24.6 bits (54), Expect = 9.3
Identities = 8/47 (17%), Positives = 19/47 (40%)
Query: 5 HTVDEMQSILQAKESKIRELEEKVKVQNEEIVQLRSHLDKFQSVFPY 51
+ V M+S+L+ S ++ L+E + + + + Q
Sbjct: 661 NFVPPMESLLEKLNSNVKTLDESSNDLQNAVKDVLAEVQAAQGFLNN 707
>gnl|CDD|226093 COG3563, KpsC, Capsule polysaccharide export protein [Cell envelope
biogenesis, outer membrane].
Length = 671
Score = 24.4 bits (53), Expect = 9.4
Identities = 10/29 (34%), Positives = 12/29 (41%), Gaps = 2/29 (6%)
Query: 56 SPTHMNNN--INLARPRKQRAQGISAEHP 82
P+ M NN + R R A I HP
Sbjct: 493 CPSIMTNNDLLRTVRARNPDAYIIYKPHP 521
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
0.312 0.129 0.359
Gapped
Lambda K H
0.267 0.0724 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,215,678
Number of extensions: 326437
Number of successful extensions: 816
Number of sequences better than 10.0: 1
Number of HSP's gapped: 806
Number of HSP's successfully gapped: 135
Length of query: 85
Length of database: 10,937,602
Length adjustment: 53
Effective length of query: 32
Effective length of database: 8,586,840
Effective search space: 274778880
Effective search space used: 274778880
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.2 bits)