RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13193
(198 letters)
>gnl|CDD|216212 pfam00955, HCO3_cotransp, HCO3- transporter family. This family
contains Band 3 anion exchange proteins that exchange
CL-/HCO3-. This family also includes cotransporters of
Na+/HCO3-.
Length = 501
Score = 143 bits (362), Expect = 2e-40
Identities = 52/130 (40%), Positives = 78/130 (60%), Gaps = 3/130 (2%)
Query: 66 NSWDYMSFRLWIGLWIGFILIILVAVDASALVCYITRFTEENFATLIAFIFIYKAIENVL 125
N DY++ R+WIGLW+ I+++LVA + S LV YITRFT+E FA LI+ IFIY+ + ++
Sbjct: 112 NGLDYLTGRVWIGLWLAVIVLLLVATEGSFLVRYITRFTQEIFAALISLIFIYETFKKLI 171
Query: 126 SIGKRFPTMSARNLNLSHDCRCIPPDDTDPIGSILNSTQLIKDECLRRNGTLVGVGC-TM 184
I K P +S + ++ C C+PP + + ++ T L K EC G L+G C
Sbjct: 172 KIFKAHPLLS--HYITNYSCVCVPPITPNNHSTEIDWTNLTKSECENYGGLLIGTSCGPH 229
Query: 185 SPPVPDVFLM 194
PP P+ L+
Sbjct: 230 PPPQPNTALL 239
Score = 62.7 bits (153), Expect = 9e-12
Identities = 19/34 (55%), Positives = 27/34 (79%)
Query: 1 MSFRLWIGLWIGFILIILVAVDASALVCYITRFT 34
++ R+WIGLW+ I+++LVA + S LV YITRFT
Sbjct: 117 LTGRVWIGLWLAVIVLLLVATEGSFLVRYITRFT 150
>gnl|CDD|233143 TIGR00834, ae, anion exchange protein. The Anion Exchanger (AE)
Family (TC 2.A.31)Characterized protein members of the
AE family are found only in animals.They preferentially
catalyze anion exchange (antiport) reactions, typically
acting as HCO3-:Cl- antiporters, but also transporting a
range of other inorganic and organic anions.
Additionally, renal Na+:HCO3- cotransporters have been
found to be members of the AE family. They catalyze the
reabsorption of HCO3- in the renal proximal tubule
[Transport and binding proteins, Anions].
Length = 900
Score = 92.5 bits (230), Expect = 5e-22
Identities = 42/129 (32%), Positives = 65/129 (50%), Gaps = 13/129 (10%)
Query: 66 NSWDYMSFRLWIGLWIGFILIILVAVDASALVCYITRFTEENFATLIAFIFIYKAIENVL 125
N +Y+ R+WIGLW+ ++++LVA + S LV YI+RFT+E F+ LI+ IFIY+ ++
Sbjct: 448 NGLEYLVGRVWIGLWLVLLVLLLVATEGSFLVRYISRFTQEIFSFLISLIFIYETFSKLI 507
Query: 126 SIGKRFPTMSARNLNLSHDCRCIPPDDTDPIGSILNSTQLIKDECLRRNGTLVGVGCTMS 185
I + P N C+PP P S+ + + GTL G C
Sbjct: 508 KIFQEHPLQVFYNTLF-----CVPPKPQGP--SVSALLEKDCSK---LGGTLGGNNCR-- 555
Query: 186 PPVPDVFLM 194
P+ L+
Sbjct: 556 -FQPNTALL 563
Score = 54.4 bits (131), Expect = 7e-09
Identities = 17/34 (50%), Positives = 26/34 (76%)
Query: 1 MSFRLWIGLWIGFILIILVAVDASALVCYITRFT 34
+ R+WIGLW+ ++++LVA + S LV YI+RFT
Sbjct: 453 LVGRVWIGLWLVLLVLLLVATEGSFLVRYISRFT 486
>gnl|CDD|222374 pfam13779, DUF4175, Domain of unknown function (DUF4175).
Length = 820
Score = 33.7 bits (78), Expect = 0.056
Identities = 17/62 (27%), Positives = 24/62 (38%), Gaps = 8/62 (12%)
Query: 43 RLWIGLWIGFILIILVAVDASALNSWDYM-SFRLWIGLWIGFILIILVAVDASALVCYIT 101
RLW LW ++ L S L WD + W L + + + ALV +
Sbjct: 2 RLWPALWPLLSVLALFLA-LSWLGLWDLLPPEWRWALLVLFALAALA------ALVLGLR 54
Query: 102 RF 103
RF
Sbjct: 55 RF 56
>gnl|CDD|217327 pfam03030, H_PPase, Inorganic H+ pyrophosphatase. The H+
pyrophosphatase is an transmembrane proton pump involved
in establishing the H+ electrochemical potential
difference between the vacuole lumen and the cell
cytosol. Vacuolar-type H(+)-translocating inorganic
pyrophosphatases have long been considered to be
restricted to plants and to a few species of
photo-trophic bacteria. However, in recent
investigations, these pyrophosphatases have been found
in organisms as disparate as thermophilic Archaea and
parasitic protists.
Length = 669
Score = 30.9 bits (71), Expect = 0.44
Identities = 24/104 (23%), Positives = 45/104 (43%), Gaps = 7/104 (6%)
Query: 7 IGLWIGFILII-LVAVDASALVCYITRFTNSWDYMSFRLWIGLWIGFILIILVAVDASAL 65
+ + F L++ V + AS + + R + M L GL + IL I+ A+
Sbjct: 246 VQAGVLFPLLVAAVGIIASIIGTFFVRTGKGANPMK-ALNRGLIVSAILSIV----ATYF 300
Query: 66 NSWDYMSFRLWIGLWIGFILIILVAVDASALVCYITR-FTEENF 108
++ + LW L +L+ + A AL+ IT +T ++
Sbjct: 301 ATYWLLPAAGKGFLWWNLFLAVLIGLVAGALIGLITEYYTSTSY 344
>gnl|CDD|234827 PRK00733, hppA, membrane-bound proton-translocating
pyrophosphatase; Validated.
Length = 666
Score = 30.1 bits (69), Expect = 0.77
Identities = 20/102 (19%), Positives = 40/102 (39%), Gaps = 7/102 (6%)
Query: 10 WIGFILII-LVAVDASALVCYITRFTNSWDYMSFRLWIGLWIGFILIILVAVDASALNSW 68
+ F L+I V + AS + + R + M L GL + +L I+ + ++
Sbjct: 235 GVLFPLLIAAVGIIASIIGIFFVRLGKGGNPMK-ALNRGLIVTAVLSIV----LTYFATY 289
Query: 69 DYMSFRLWIGLWIGFILIILVAVDASALVCYIT-RFTEENFA 109
+ W+ +L+ + AL+ IT +T +
Sbjct: 290 WLLGDGADGFTWLNLFGAVLIGLVVGALIGLITEYYTSTEYR 331
>gnl|CDD|184256 PRK13700, PRK13700, conjugal transfer protein TraD; Provisional.
Length = 732
Score = 29.9 bits (67), Expect = 1.1
Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 6/37 (16%)
Query: 3 FRLWIG--LWIGFILIILVAVDASALVCYITRFTNSW 37
+ +W G LW F+L +VA ++C IT F SW
Sbjct: 100 YMIWCGEQLWSAFVLAAVVA----LVICLITFFVVSW 132
>gnl|CDD|180055 PRK05398, PRK05398, formyl-coenzyme A transferase; Provisional.
Length = 416
Score = 29.6 bits (67), Expect = 1.2
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 155 PIGSILNSTQLIKDECLRRNGTLVGV 180
P G +L+ ++ +D LR +GT+V V
Sbjct: 334 PCGPVLSMKEIAEDPSLRASGTIVEV 359
>gnl|CDD|217165 pfam02653, BPD_transp_2, Branched-chain amino acid transport system
/ permease component. This is a large family mainly
comprising high-affinity branched-chain amino acid
transporter proteins such as E. coli LivH and LivM, both
of which are form the LIV-I transport system. Also found
with in this family are proteins from the galactose
transport system permease and a ribose transport system.
Length = 267
Score = 28.3 bits (64), Expect = 2.1
Identities = 17/106 (16%), Positives = 38/106 (35%), Gaps = 2/106 (1%)
Query: 1 MSFRLWIGLWIGFILIILVAVDASALVCYITRFTNSWDYMS--FRLWIGLWIGFILIILV 58
+ LW+ + +LV L + + + +I + L+ +
Sbjct: 46 LLALGGSNLWLALLAGLLVGAAVGLLNGLLVVRLKVPEVIVTLLLNFILRGLTLFLLTGI 105
Query: 59 AVDASALNSWDYMSFRLWIGLWIGFILIILVAVDASALVCYITRFT 104
+ ++ + + L GF +I L+A+ + LV + R T
Sbjct: 106 LGGPAGTSTIVDLLGFPGLFLSFGFGVIFLLALLLALLVWLLLRRT 151
>gnl|CDD|173743 cd07846, STKc_CDKL2_3, Catalytic domain of the Serine/Threonine
Kinases, Cyclin-Dependent protein Kinase Like 2 and 3.
Serine/Threonine Kinases (STKs), Cyclin-dependent
protein kinase like 2 (CDKL2) and CDKL3 subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CDKL2 and CDKL3
subfamily is part of a larger superfamily that includes
the catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. CDKs belong to a large family of STKs that are
regulated by their cognate cyclins. Together, they are
involved in the control of cell-cycle progression,
transcription, and neuronal function. CDKL2, also called
p56 KKIAMRE, is expressed in testis, kidney, lung, and
brain. It functions mainly in mature neurons and plays
an important role in learning and memory. Inactivation
of CDKL3, also called NKIAMRE (NKIATRE in rat), by
translocation is associated with mild mental
retardation. It has been reported that CDKL3 is lost in
leukemic cells having a chromosome arm 5q deletion, and
may contribute to the transformed phenotype.
Length = 286
Score = 28.1 bits (63), Expect = 2.7
Identities = 13/42 (30%), Positives = 22/42 (52%)
Query: 121 IENVLSIGKRFPTMSARNLNLSHDCRCIPPDDTDPIGSILNS 162
++ + + KRFP +S L+L+ C I PDD +L+
Sbjct: 242 VKEIEPLEKRFPKLSGLVLDLAKQCLRIDPDDRPSSSQLLHH 283
>gnl|CDD|216049 pfam00664, ABC_membrane, ABC transporter transmembrane region.
This family represents a unit of six transmembrane
helices. Many members of the ABC transporter family
(pfam00005) have two such regions.
Length = 274
Score = 28.0 bits (63), Expect = 3.3
Identities = 16/72 (22%), Positives = 27/72 (37%), Gaps = 1/72 (1%)
Query: 9 LWIGFILIILVAVDASALVCYITRFTNSW-DYMSFRLWIGLWIGFILIILVAVDASALNS 67
L I +L+IL A + RF +S D + + +LI + + L
Sbjct: 1 LLIAILLLILAGATALVFPLLLGRFLDSLIDGNGDERSSLISLAILLIAVGVLQGLLLQG 60
Query: 68 WDYMSFRLWIGL 79
Y+ RL +
Sbjct: 61 SFYLGERLGQRI 72
>gnl|CDD|211800 TIGR03253, oxalate_frc, formyl-CoA transferase. This enzyme,
formyl-CoA transferase, transfers coenzyme A from
formyl-CoA to oxalate. It forms a pathway, together with
oxalyl-CoA decarboxylase, for oxalate degradation;
decarboxylation by the latter gene regenerates
formyl-CoA. The two enzymes typically are encoded by a
two-gene operon [Cellular processes, Detoxification].
Length = 415
Score = 27.5 bits (61), Expect = 5.3
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 155 PIGSILNSTQLIKDECLRRNGTLVGV 180
P G +L+ ++ +D LR GT+V V
Sbjct: 333 PCGPVLSMKEIAEDPSLRAVGTVVEV 358
>gnl|CDD|221675 pfam12629, Pox_polyA_pol_C, Poxvirus poly(A) polymerase C-terminal
domain. This domain is found at the C-terminus of the
pox virus PolyA polymerase protein.
Length = 202
Score = 26.9 bits (60), Expect = 5.4
Identities = 14/62 (22%), Positives = 20/62 (32%), Gaps = 14/62 (22%)
Query: 124 VLSIGKRFPTMSARNLNLSHD-CRCI-------------PPDDTDPIGSILNSTQLIKDE 169
I R T+ + N S+D C DD ++ NS LI D
Sbjct: 58 PFDINNRIITVDTKKYNFSYDKCVVYLDEPSLSSDILDLNADDAVDFENVSNSAYLIDDN 117
Query: 170 CL 171
+
Sbjct: 118 TM 119
>gnl|CDD|239589 cd03512, Alkane-hydroxylase, Alkane hydroxylase is a bacterial,
integral-membrane di-iron enzyme that shares a
requirement for iron and oxygen for activity similar to
that of the non-heme integral-membrane acyl coenzyme A
(CoA) desaturases and acyl lipid desaturases. The alk
genes in Pseudomonas oleovorans encode conversion of
alkanes to acyl CoA. The alkane omega-hydroxylase
(AlkB) system is responsible for the initial oxidation
of inactivated alkanes. It is a three-component system
comprising a soluble NADH-rubredoxin reductase (AlkT),
a soluble rubredoxin (AlkG), and the integral membrane
oxygenase (AlkB). AlkB utilizes the oxygen rebound
mechanism to hydroxylate alkanes. This mechanism
involves homolytic cleavage of the C-H bond by an
electrophilic metal-oxo intermediate to generate a
substrate-based radical. As with other members of this
superfamily, this domain family has extensive
hydrophobic regions that would be capable of spanning
the membrane bilayer at least twice. The active site
structure of AlkB is not known, however, spectroscopic
and genetic evidence points to a nitrogen-rich
coordination environment located in the cytoplasm with
as many as eight histidines coordinating the two iron
ions and a carboxylate residue bridging the two metals.
Like all other members of this superfamily, there are
eight conserved histidines seen in the histidine
cluster motifs: HXXXH, HXXXHH, and HXXHH. These
histidine residues are reported to be catalytically
essential and proposed to be the ligands for the iron
atoms contained within the homolog, stearoyl CoA
desaturase. Also included in this CD are terminal
alkane hydroxylases (AlkM), xylene monooxygenase
hydroxylases (XylM), p-cymene monooxygenase
hydroxylases (CymAa), and other related proteins.
Length = 314
Score = 27.2 bits (61), Expect = 6.0
Identities = 18/85 (21%), Positives = 34/85 (40%), Gaps = 4/85 (4%)
Query: 6 WIGL--WIGFILII--LVAVDASALVCYITRFTNSWDYMSFRLWIGLWIGFILIILVAVD 61
W+GL I ++ L+ +D S + + L + L + + + AV
Sbjct: 4 WLGLLFITVLIPLLDALLGLDLSNPPEEPPLEKDRYYRWLLYLLLPLQFALLFLGVWAVS 63
Query: 62 ASALNSWDYMSFRLWIGLWIGFILI 86
L++ + + L +GL G I I
Sbjct: 64 TGDLSALEKVGLILSLGLLSGVIGI 88
>gnl|CDD|110122 pfam01098, FTSW_RODA_SPOVE, Cell cycle protein. This entry
includes the following members; FtsW, RodA, SpoVE.
Length = 356
Score = 27.2 bits (61), Expect = 6.2
Identities = 18/94 (19%), Positives = 38/94 (40%), Gaps = 16/94 (17%)
Query: 3 FRLWIGLWIGFILIILVAVDASALVCYITRFTNSWDYMSFRLWIGLWIGFILIILVAVDA 62
L L + + LV + +++ V + F + + + R + L +GFI+ +++
Sbjct: 1 RTLLFILLLLLGFLGLVMIYSASGVTSLVLFGDPF-FFFKRQLVYLLLGFIIFVVLL--- 56
Query: 63 SALNSWDYMSFRLW-----IGLWIGFILIILVAV 91
+ R IG +L++LV V
Sbjct: 57 -------RIPLRFLRKWAFYLFIIGLLLLVLVFV 83
>gnl|CDD|234093 TIGR03025, EPS_sugtrans, exopolysaccharide biosynthesis polyprenyl
glycosylphosphotransferase. Members of this family are
generally found near other genes involved in the
biosynthesis of a variety of exopolysaccharides. These
proteins consist of two fused domains, an N-terminal
hydrophobic domain of generally low conservation and a
highly conserved C-terminal sugar transferase domain
(pfam02397). Characterized and partially characterized
members of this subfamily include Salmonella WbaP
(originally RfbP) , E. coli WcaJ , Methylobacillus EpsB,
Xanthomonas GumD, Vibrio CpsA, Erwinia AmsG, Group B
Streptococcus CpsE (originally CpsD), and Streptococcus
suis Cps2E. Each of these is believed to act in
transferring the sugar from, for instance, UDP-glucose
or UDP-galactose, to a lipid carrier such as
undecaprenyl phosphate as the first (priming) step in
the synthesis of an oligosaccharide "block". This
function is encoded in the C-terminal domain. The
liposaccharide is believed to be subsequently
transferred through a "flippase" function from the
cytoplasmic to the periplasmic face of the inner
membrane by the N-terminal domain. Certain closely
related transferase enzymes such as Sinorhizobium ExoY
and Lactococcus EpsD lack the N-terminal domain and are
not found by this model.
Length = 445
Score = 27.2 bits (61), Expect = 7.0
Identities = 19/88 (21%), Positives = 36/88 (40%), Gaps = 10/88 (11%)
Query: 4 RLWIGLWIGFILIILVAVDASALVCYITRFTNSWDYMSFRLWIGLWIGFILIILVAVDAS 63
L + L + LI+ A Y + S R+ + + F+L++ +A
Sbjct: 30 SLLLLLILLLFLILFAASGL-----YRSWRGRSLLEELARVLLAWLLVFLLLLALAF--- 81
Query: 64 ALNSWDYMSFRLWIGLWIGFILIILVAV 91
L +D+ RL + LW L++L+
Sbjct: 82 LLKGFDF--SRLVLLLWFVLALVLLLLW 107
>gnl|CDD|176207 cd08245, CAD, Cinnamyl alcohol dehydrogenases (CAD) and related
proteins. Cinnamyl alcohol dehydrogenases (CAD),
members of the medium chain dehydrogenase/reductase
family, reduce cinnamaldehydes to cinnamyl alcohols in
the last step of monolignal metabolism in plant cells
walls. CAD binds 2 zinc ions and is NADPH- dependent.
CAD family members are also found in non-plant species,
e.g. in yeast where they have an aldehyde reductase
activity. The medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes, or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 330
Score = 26.9 bits (60), Expect = 7.3
Identities = 14/30 (46%), Positives = 17/30 (56%), Gaps = 3/30 (10%)
Query: 171 LRRNGTLVGVGCTMSP-PVPDVF--LMNSQ 197
LRR G +V VG SP PD+F +M Q
Sbjct: 246 LRRGGRIVLVGLPESPPFSPDIFPLIMKRQ 275
>gnl|CDD|224295 COG1377, FlhB, Flagellar biosynthesis pathway, component FlhB [Cell
motility and secretion / Intracellular trafficking and
secretion].
Length = 363
Score = 26.8 bits (60), Expect = 8.5
Identities = 7/34 (20%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 38 DYMSFRLWIGLWIGFILIILVAVDASALNSWDYM 71
+M + L + +L+I+ A D + Y+
Sbjct: 185 IFMELLGKLLLAVLLLLLIVAAFDY-FYQRFQYI 217
Score = 26.4 bits (59), Expect = 10.0
Identities = 10/53 (18%), Positives = 19/53 (35%), Gaps = 2/53 (3%)
Query: 41 SFRLWIGLWIGFILII-LVAVDASALNSWDYMSFRLWIGLWIGFILIILVAVD 92
+ L ++ L A S +M + L + +L+I+ A D
Sbjct: 157 GLVAYFVLKNHLSELLSLAGQSPVAALSI-FMELLGKLLLAVLLLLLIVAAFD 208
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
0.331 0.144 0.483
Gapped
Lambda K H
0.267 0.0770 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,409,789
Number of extensions: 999110
Number of successful extensions: 2718
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2427
Number of HSP's successfully gapped: 388
Length of query: 198
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 106
Effective length of database: 6,857,034
Effective search space: 726845604
Effective search space used: 726845604
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 56 (25.3 bits)