RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 021846
(306 letters)
>gnl|CDD|223131 COG0053, MMT1, Predicted Co/Zn/Cd cation transporters [Inorganic
ion transport and metabolism].
Length = 304
Score = 98.5 bits (246), Expect = 7e-24
Identities = 54/199 (27%), Positives = 101/199 (50%), Gaps = 18/199 (9%)
Query: 90 MTKEERENLARSETLAIRISNVANMVLFAAKVYASVKSGSLAIIASTLDSLLDLLSGFIL 149
M +EER L R A IS N+ L K+ A + +GS+A++A + SL D+++ I+
Sbjct: 2 MMEEERLKLVRR---AALISLAVNLALALLKLIAGILTGSVALLADAIHSLSDIVASLIV 58
Query: 150 WFT-AFSMQTPNPYQYPIGKKRMQPLGILVFASVMATLGLQIILESLRTLVSNEDQFNLT 208
S + P+ +P G + + L L+ + ++ G +I+LE+++ L+S +
Sbjct: 59 LIGLRISSKPPD-RDHPYGHGKAETLASLIVSILIFAAGFEILLEAIKRLISPQ-----P 112
Query: 209 KEQEQWVVGIMLSVTLVKLLLVVYCR----AFTNEIVKAYAQDHFFDVITNIIGLVAVLL 264
E +G+ L ++K L Y R ++ + A A H DV+T++ LV +L
Sbjct: 113 VEPPLLALGVALISIVIKEALYRYLRRVGKKTNSQALIADALHHRSDVLTSLAVLVGLLG 172
Query: 265 A--NYIDDWMDPVGAIIVS 281
+ + W+DP+ A+++S
Sbjct: 173 SLLGWP--WLDPLAALLIS 189
>gnl|CDD|216561 pfam01545, Cation_efflux, Cation efflux family. Members of this
family are integral membrane proteins, that are found to
increase tolerance to divalent metal ions such as
cadmium, zinc, and cobalt. These proteins are thought to
be efflux pumps that remove these ions from cells.
Length = 273
Score = 92.4 bits (230), Expect = 7e-22
Identities = 45/174 (25%), Positives = 86/174 (49%), Gaps = 13/174 (7%)
Query: 115 VLFAAKVYASVKSGSLAIIASTLDSLLDLLSGFILWFTAFSMQTPNPYQYPIGKKRMQPL 174
+L K+ A + +GSLA++A L SL+DLLS + P ++P G R++PL
Sbjct: 1 LLALVKLAAGLLTGSLALLADALHSLIDLLSSLLALLALRLSSRPPDKRHPFGHGRLEPL 60
Query: 175 GILVFASVMATLGLQIILESLRTLVSNEDQFNLTKEQEQWVVGIMLSVTLVKLLLVVYCR 234
L+ + ++ +G+ I+ ES+ L+S E+ ++ + L +V LLL +Y R
Sbjct: 61 AALIVSLLLLGVGVFILYESIERLISPEEIEPG------GILLVALISLVVNLLLALYLR 114
Query: 235 ------AFTNEIVKAYAQDHFFDVITNIIGLVAVLLANYIDD-WMDPVGAIIVS 281
+ ++A A DV+ ++ L+ +LL DP+ +++++
Sbjct: 115 RAGRKIGKKSSALRADALHALVDVLGSLAVLIGLLLILLTGLPIADPLASLLIA 168
Score = 30.3 bits (69), Expect = 1.1
Identities = 22/87 (25%), Positives = 39/87 (44%), Gaps = 9/87 (10%)
Query: 114 MVLFAAKVYASVKSGSLAIIASTLDSLLDLL-SGFILWFTAFSMQTPNPYQYPIGKKRMQ 172
+ L+ + + S A+ A L +L+D+L S +L + T P
Sbjct: 109 LALYLRRAGRKIGKKSSALRADALHALVDVLGSLAVLIGLLLILLTGLPI--------AD 160
Query: 173 PLGILVFASVMATLGLQIILESLRTLV 199
PL L+ A ++ GL+++ ESL L+
Sbjct: 161 PLASLLIALLILYTGLRLLKESLSELL 187
>gnl|CDD|233348 TIGR01297, CDF, cation diffusion facilitator family transporter.
This model describes a broadly distributed family of
transporters, a number of which have been shown to
transport divalent cations of cobalt, cadmium and/or
zinc. The family has six predicted transmembrane
domains. Members of the family are variable in length
because of variably sized inserts, often containing
low-complexity sequence [Transport and binding proteins,
Cations and iron carrying compounds].
Length = 268
Score = 66.5 bits (163), Expect = 1e-12
Identities = 39/172 (22%), Positives = 81/172 (47%), Gaps = 11/172 (6%)
Query: 115 VLFAAKVYASVKSGSLAIIASTLDSLLDLLSGFILWFTAFSM-QTPNPYQYPIGKKRMQP 173
+L K+ + SGSLA++A + SL D+ + I A + + P ++P G R +
Sbjct: 1 LLMLIKIVGGLLSGSLALLADAIHSLSDVAASAIALL-ALRISRRPADERHPFGHGRAEI 59
Query: 174 LGILVFASVMATLGLQIILESLRTLVSNEDQFNLTKEQEQWVVGIMLSVTLVKLLLVVYC 233
L L+ + + L I+ E++ L++ E + ++ + + +V L+L +Y
Sbjct: 60 LAALLNGLFLVVVALFILYEAIERLINPEPE-----IDGGTMLIVAIVGLIVNLILALYL 114
Query: 234 RAFT----NEIVKAYAQDHFFDVITNIIGLVAVLLANYIDDWMDPVGAIIVS 281
+ ++A A D ++++ L+ LL + W DP+ A+++S
Sbjct: 115 HRVGHRLGSLALRAAALHVLSDALSSVGVLIGALLIYFGWHWADPIAALLIS 166
>gnl|CDD|224151 COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion
transport and metabolism].
Length = 296
Score = 50.8 bits (122), Expect = 2e-07
Identities = 43/198 (21%), Positives = 86/198 (43%), Gaps = 19/198 (9%)
Query: 105 AIRISNVANMVLFAAKVYASVKSGSLAIIASTLDSLLDLLS-GFILWFTAFSMQTPNPYQ 163
+ I+ + N+ ++ + +GSLA++A L L D L+ L + + +
Sbjct: 23 RLLIALLLNLAFMLIEIIGGLLTGSLALLADALHMLSDALALLLALIAIKLARRPATK-R 81
Query: 164 YPIGKKRMQPLGILVFASVMATLGLQIILESLRTLVSNEDQFNLTKEQEQW--VVGIM-L 220
+ G KR++ L + A ++ + L I+ E+++ L VV I+ L
Sbjct: 82 FTFGYKRLEILAAFLNALLLIVVSLLILWEAIQRL------LAPPPIHYSGMLVVAIIGL 135
Query: 221 SVTLVKLLLVVYCRAFTNEIVKAYAQDHFF-DVITNIIGLVAVLLANYID-DWMDPVGAI 278
V LV LL+ + AY H D + ++ ++A ++ + W+DP+ +I
Sbjct: 136 VVNLVSALLLHKGHEENLNMRGAYL--HVLGDALGSVGVIIAAIVIRFTGWSWLDPILSI 193
Query: 279 IVSQISNSLVFSCACVHL 296
+++ L+ S A L
Sbjct: 194 VIA----LLILSSAWPLL 207
>gnl|CDD|226474 COG3965, COG3965, Predicted Co/Zn/Cd cation transporters [Inorganic
ion transport and metabolism].
Length = 314
Score = 44.0 bits (104), Expect = 5e-05
Identities = 25/100 (25%), Positives = 52/100 (52%), Gaps = 1/100 (1%)
Query: 102 ETLAIRISNVANMVLFAAKVYASVKSGSLAIIASTLDSLLDL-LSGFILWFTAFSMQTPN 160
E L +RIS ++ A + + SGS++II + SL+D ++ L + + P
Sbjct: 18 EQLYLRISIAGTVIFAAFGIIWGLLSGSMSIIFDGVYSLIDAGMTLLSLLVSRLIAKDPR 77
Query: 161 PYQYPIGKKRMQPLGILVFASVMATLGLQIILESLRTLVS 200
++P G ++PL + + +++A L L ++ +L +L+
Sbjct: 78 DARFPYGFWHLEPLVLAINGTLLALLCLYALINALGSLLD 117
>gnl|CDD|213771 TIGR03076, near_not_gcvH, Chlamydial GcvH-like protein upstream
region protein. The H protein (GcvH) of the glycine
cleavage system shuttles the methylamine group of
glycine from the P protein to the T protein. Most
Chlamydia but lack the P and T proteins, and have a
single homolog of GcvH that appears deeply split from
canonical GcvH in molecular phylogenetic trees. The
protein family modeled here is observed so far only in
the Chlamydiae, always as part of a two-gene operon,
upstream of the homolog of GcvH. Its function is unknown
[Unknown function, General].
Length = 686
Score = 31.4 bits (71), Expect = 0.65
Identities = 17/70 (24%), Positives = 31/70 (44%), Gaps = 9/70 (12%)
Query: 188 LQIILESLRTLVSNEDQFNLTKEQEQWVVGIMLSVTLVKLLLVVYCRAFTNEIVKAYAQD 247
IL L ++ L+ ++ + GI V L K+LL NE++ Y+QD
Sbjct: 464 PGRILSELAQQEQKSEEVFLSAGKDSLLPGIQDGVRLAKVLL-------QNEVLDYYSQD 516
Query: 248 --HFFDVITN 255
+++ +I
Sbjct: 517 DEYYYTIIVK 526
>gnl|CDD|181919 PRK09509, fieF, ferrous iron efflux protein F; Reviewed.
Length = 299
Score = 31.2 bits (71), Expect = 0.68
Identities = 13/47 (27%), Positives = 28/47 (59%)
Query: 97 NLARSETLAIRISNVANMVLFAAKVYASVKSGSLAIIASTLDSLLDL 143
+ AR + A + +L K++A +GS++++A+ +DSL+D+
Sbjct: 4 SYARLVSRAAIAATAMASLLLLIKIFAWWYTGSVSLLAALVDSLVDI 50
>gnl|CDD|178526 PLN02938, PLN02938, phosphatidylserine decarboxylase.
Length = 428
Score = 30.2 bits (68), Expect = 1.6
Identities = 16/62 (25%), Positives = 23/62 (37%), Gaps = 12/62 (19%)
Query: 4 PVARESDEETSLLAQQGNVDRSWRLNFDGFQVS------PERTEKKPPRGLHDCLGVLGP 57
P+ E EE + +SW +VS + P +GL C+ LGP
Sbjct: 208 PMTAEGKEEKEEETLKDKSSKSW------LRVSLASPKLRDPVSASPMKGLFYCVIYLGP 261
Query: 58 ED 59
D
Sbjct: 262 GD 263
>gnl|CDD|212083 cd11514, SLC6sbd_DAT1, Na(+)- and Cl(-)-dependent dopamine
transporter 1; solute-binding domain. DAT1 (also called
DAT), is a plasma membrane transport protein that
functions at the dopaminergic synapses to transport
dopamine from the extracellular space back into the
presynaptic nerve terminal. Human DAT1 is encoded by the
SLC6A3 gene, and is expressed in the brain. DAT1 may
play a role in diseases or disorders related to
dopaminergic neurons, including attention-deficit
hyperactivity disorder (ADHD), Tourette syndrome,
Parkinson's disease, alcoholism, drug abuse,
schizophrenia, extraversion, and risky behavior. This
subgroup belongs to the solute carrier 6 (SLC6)
transporter family.
Length = 555
Score = 29.9 bits (67), Expect = 1.8
Identities = 41/160 (25%), Positives = 70/160 (43%), Gaps = 41/160 (25%)
Query: 131 AIIASTLDSLLDLLSGFILW-FTAFSMQTPNPYQYPIGKKRMQPLGI--LVFASVMATLG 187
AII ++++SL SGF+++ F + Q N PIG G+ +++ +ATL
Sbjct: 287 AIITTSINSLTSFFSGFVVFSFLGYMAQKHN---VPIGDVAKDGPGLIFIIYPEAIATLP 343
Query: 188 LQII--------------------LESLRTLVSNEDQFNLTKEQEQWVVGIMLSVTLVKL 227
L + +ES+ T + +E +F L + +E + + I+LS L+ L
Sbjct: 344 LSSVWAVIFFIMLLTLGIDSAMGGMESVITGLIDEFKF-LHRHRELFTLFIVLSTFLISL 402
Query: 228 LLVVYCRAFTNEIVKAYA-QDHF-------FDVITNIIGL 259
V TN + + DHF F V+ IG+
Sbjct: 403 FCV------TNGGIYVFTLLDHFAAGTSILFGVLIEAIGI 436
>gnl|CDD|235798 PRK06416, PRK06416, dihydrolipoamide dehydrogenase; Reviewed.
Length = 462
Score = 29.0 bits (66), Expect = 3.1
Identities = 11/26 (42%), Positives = 18/26 (69%), Gaps = 1/26 (3%)
Query: 179 FASVMATLGLQI-ILESLRTLVSNED 203
FAS A+LG ++ I+E+L ++ ED
Sbjct: 187 FASAYASLGAEVTIVEALPRILPGED 212
>gnl|CDD|215923 pfam00445, Ribonuclease_T2, Ribonuclease T2 family.
Length = 182
Score = 28.6 bits (64), Expect = 3.2
Identities = 8/37 (21%), Positives = 17/37 (45%)
Query: 56 GPEDNVAEYYQQQVQMLEGFNEMDALAERGFVPGMTK 92
+ +Y+ + +++ + N +D LA G P K
Sbjct: 93 LSGLSQDDYFSKALKLKDKLNLLDILASAGIKPSDGK 129
>gnl|CDD|234772 PRK00458, PRK00458, S-adenosylmethionine decarboxylase proenzyme;
Provisional.
Length = 127
Score = 28.1 bits (63), Expect = 3.3
Identities = 13/41 (31%), Positives = 21/41 (51%)
Query: 99 ARSETLAIRISNVANMVLFAAKVYASVKSGSLAIIASTLDS 139
R E + + +ANM L K + K G +++IA L+S
Sbjct: 35 ERLEQIVKEAAKIANMTLLDIKSWKFGKKGGVSVIALVLES 75
>gnl|CDD|238756 cd01479, Sec24-like, Sec24-like: Protein and membrane traffic in
eukaryotes is mediated by at least in part by the
budding and fusion of intracellular transport vesicles
that selectively carry cargo proteins and lipids from
donor to acceptor organelles. The two main classes of
vesicular carriers within the endocytic and the
biosynthetic pathways are COP- and clathrin-coated
vesicles. Formation of COPII vesicles requires the
ordered assembly of the coat built from several
cytosolic components GTPase Sar1, complexes of
Sec23-Sec24 and Sec13-Sec31. The process is initiated by
the conversion of GDP to GTP by the GTPase Sar1 which
then recruits the heterodimeric complex of Sec23 and
Sec24. This heterodimeric complex generates the
pre-budding complex. The final step leading to membrane
deformation and budding of COPII-coated vesicles is
carried by the heterodimeric complex Sec13-Sec31. The
members of this CD belong to the Sec23-like family. Sec
24 is very similar to Sec23. The Sec23 and Sec24
polypeptides fold into five distinct domains: a
beta-barrel, a zinc finger, a vWA or trunk, an all
helical region and a carboxy Gelsolin domain. The
members of this subgroup carry a partial MIDAS motif and
have the overall Para-Rossmann type fold that is
characteristic of this superfamily.
Length = 244
Score = 28.4 bits (64), Expect = 4.2
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 122 YASVKSGSLAIIASTLDSLLDLLSGF 147
Y ++KSG LA L S LD L G
Sbjct: 14 YNAIKSGLLATACEALLSNLDNLPGD 39
>gnl|CDD|218053 pfam04383, KilA-N, KilA-N domain. The amino-terminal module of the
D6R/N1R proteins defines a novel, conserved DNA-binding
domain (the KilA-N domain) that is found in a wide range
of proteins of large bacterial and eukaryotic DNA
viruses. The KilA-N domain family also includes the
previously defined APSES domain. The KilA-N and APSES
domains may also share a common fold with the nucleic
acid-binding modules of the LAGLIDADG nucleases and the
amino-terminal domains of the tRNA endonuclease.
Length = 106
Score = 26.9 bits (60), Expect = 6.1
Identities = 14/63 (22%), Positives = 25/63 (39%), Gaps = 11/63 (17%)
Query: 237 TNEIVKAYAQDHFFDVITNIIGLVAV-----------LLANYIDDWMDPVGAIIVSQISN 285
T E+++ ++ + D + I G LA I W+ P A+ VS+I +
Sbjct: 42 TKELIEELSKINNPDKLIVIEGRKGKNGRLQGTYVHPDLALAIASWISPEFALKVSKIID 101
Query: 286 SLV 288
Sbjct: 102 EYK 104
>gnl|CDD|130023 TIGR00948, 2a75, L-lysine exporter. [Transport and binding
proteins, Amino acids, peptides and amines].
Length = 177
Score = 27.3 bits (61), Expect = 8.0
Identities = 26/128 (20%), Positives = 55/128 (42%), Gaps = 17/128 (13%)
Query: 111 VANMVLFAAKVYASVKSGSLAIIASTLDSLLDLLSG---FILWFTAFS----MQTPNPYQ 163
+ ++VL AA V+ G A++A++ L L G F+LW+ + + P
Sbjct: 31 ICDLVLIAAGVF-----GVAALLAASPILLAVLTWGGALFLLWYGFLAAKTAWRGPGALV 85
Query: 164 YPIGKKRMQPLGILVFASVMATLGLQIILESLRTLVSNEDQFNLTKEQEQWVVGI-MLSV 222
P K+M +L + L + L+++ + + QF+ + +W+ ++
Sbjct: 86 -PDEPKKMGLKKVLAMTLAVTLLNPHVYLDTVVLIGALGLQFS---DLLRWLFAAGAIAA 141
Query: 223 TLVKLLLV 230
+LV +
Sbjct: 142 SLVWFASL 149
>gnl|CDD|239249 cd02951, SoxW, SoxW family; SoxW is a bacterial periplasmic TRX,
containing a redox active CXXC motif, encoded by a
genetic locus (sox operon) involved in thiosulfate
oxidation. Sulfur bacteria oxidize sulfur compounds to
provide reducing equivalents for carbon dioxide fixation
during autotrophic growth and the respiratory electron
transport chain. It is unclear what the role of SoxW is,
since it has been found to be dispensable in the
oxidation of thiosulfate to sulfate. SoxW is
specifically kept in the reduced state by SoxV, which is
essential in thiosulfate oxidation.
Length = 125
Score = 26.9 bits (60), Expect = 8.2
Identities = 11/33 (33%), Positives = 14/33 (42%), Gaps = 5/33 (15%)
Query: 231 VYCRAFTNEI-----VKAYAQDHFFDVITNIIG 258
YC + V+AY + HF V NI G
Sbjct: 27 PYCDKLKRDYLNDPAVQAYIRAHFVVVYINIDG 59
>gnl|CDD|212068 cd11499, SLC6sbd_GlyT2, Na(+)- and Cl(-)-dependent glycine
transporter GlyT2; solute-binding domain. GlyT2 (also
called NET1) is a membrane-bound transporter that
re-uptakes glycine from the synaptic cleft. Human GlyT2
is encoded by the SLC6A5 gene. GlyT2 is expressed in
brain and spinal cord. GlyT2 may play a role in pain,
and in spasticity. This subgroup belongs to the solute
carrier 6 (SLC6) transporter family.
Length = 606
Score = 27.6 bits (61), Expect = 9.2
Identities = 23/104 (22%), Positives = 48/104 (46%), Gaps = 6/104 (5%)
Query: 164 YPIGKKRM--QPLGILVFASVMATLGLQIILESLRTLVSN-EDQFN--LTKEQEQWVVGI 218
YP R+ P ++F ++ TLGL + ++ T+V++ D+F L + + +
Sbjct: 360 YPEALTRLPLSPFWAIIFFLMLLTLGLDTMFATIETIVTSVSDEFPKYLRTHKPLFTLVC 419
Query: 219 MLSVTLVKLLLVVYCRAFTNEIVKAYAQDHFFDVITNIIGLVAV 262
+S ++ ++ + ++V YA + VI I LV +
Sbjct: 420 CISFFIMGFPMITQGGMYMLQLVDTYAASYSL-VIIAIFELVGI 462
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
0.322 0.136 0.399
Gapped
Lambda K H
0.267 0.0717 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,517,794
Number of extensions: 1501741
Number of successful extensions: 1482
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1465
Number of HSP's successfully gapped: 52
Length of query: 306
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 209
Effective length of database: 6,635,264
Effective search space: 1386770176
Effective search space used: 1386770176
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 59 (26.5 bits)