RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 018715
(351 letters)
>gnl|CDD|233147 TIGR00840, b_cpa1, sodium/hydrogen exchanger 3. The Monovalent
Cation:Proton Antiporter-1 (CPA1) Family (TC 2.A.36)The
CPA1 family is a large family of proteins derived from
Gram-positive and Gram-negative bacteria, blue green
bacteria, yeast, plants and animals.Transporters from
eukaryotes have been functionally characterized, and all
of these catalyze Na+:H+ exchange. Their primary
physiological functions may be in(1) cytoplasmic pH
regulation, extruding the H+ generated during
metabolism, and (2) salt tolerance (in plants), due to
Na+ uptake into vacuoles.This model is specific for the
eukaryotic members members of this family [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 559
Score = 173 bits (439), Expect = 3e-49
Identities = 89/287 (31%), Positives = 146/287 (50%), Gaps = 12/287 (4%)
Query: 47 RWMNESITALIIGLCTGIVILLTTNGTSSHVLMFSEDLFFIYLLPPIIFNAGFQVKKKQF 106
R + ES+ ++ GL G +I + + FF+YLLPPI+ +AG+ + ++ F
Sbjct: 33 RAVPESVLLIVYGLLVGGIIKASPHIDP---PTLDSSYFFLYLLPPIVLDAGYFMPQRNF 89
Query: 107 FRNFMTIMLFGAVGTLISFVIISAG--AVHFFKQMNIGTLKIGDYLAIGAIFAATDSVCT 164
F N +I++F VGTLI+ +I + + + D L G++ +A D V
Sbjct: 90 FENLGSILIFAVVGTLINAFVIGLSLYGICLIGGFGSIDIGLLDNLLFGSLISAVDPVAV 149
Query: 165 LQVLNQ-DETPLLYSLVFGEGVVNDATSVVLFNAIQSF---DLSHINLSIALKFVGSFFY 220
L V + LY ++FGE ++NDA +VVL+N F + + + SFF
Sbjct: 150 LAVFEEYHVNEKLYIIIFGESLLNDAVTVVLYNTFIKFHKTADEPVTIVDVFEGCASFFV 209
Query: 221 LFIASTMLGVIAGLLSAFIIKKLYMGRHSTDREVALMILMAYLSYMLAELFYLSGILTVF 280
+ ++GV+ G L AFI + H E + L++YLSY+ AE +LSGIL +
Sbjct: 210 VTCGGLLVGVVFGFLVAFITRFT---HHIRQIEPLFVFLISYLSYLFAETLHLSGILALI 266
Query: 281 FCGIVMSHYTWHNVTESSRVTTKHAFATLSFVAEIFIFLYVGMDALD 327
FCGI M Y N++ S+ T K+ LS ++E IF+++G+ +
Sbjct: 267 FCGITMKKYVEANMSRRSQTTIKYFMKMLSSLSETLIFIFLGVSLVT 313
>gnl|CDD|223104 COG0025, NhaP, NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic
ion transport and metabolism].
Length = 429
Score = 114 bits (288), Expect = 1e-28
Identities = 60/283 (21%), Positives = 121/283 (42%), Gaps = 9/283 (3%)
Query: 52 SITALIIGLCTGIVILLTTNGTSSHVLMFSEDLFFIYLLPPIIFNAGFQVKKKQFFRNFM 111
+ + + L G++ S L +LF + L ++F G ++ ++ R +
Sbjct: 29 LLPEIPLLLLLGLLGGPPGLNLISPDLELDPELFLVLFLAILLFAGGLELDLRELRRVWR 88
Query: 112 TIMLFGAVGTLISFVIISAGAVHFFKQMNIGTLKIGDYLAIGAIFAATDSVCTLQVLNQD 171
+I++ LI+ + I H+ + + + +GAI + TD V + +
Sbjct: 89 SILVLALPLVLITALGI-GLLAHWL----LPGIPLAAAFLLGAILSPTDPVAVSPIFKRV 143
Query: 172 ETPL-LYSLVFGEGVVNDATSVVLFNAIQSFDLSHINLSIALKFVGSFFYLFIASTMLGV 230
P + +++ GE ++ND +VLF + L S+ + F + +LG+
Sbjct: 144 RVPKRIRTILEGESLLNDGVGIVLFKVALAALLGTGAFSLGW-ALLLFLIEALGGILLGL 202
Query: 231 IAGLLSAFIIKKLY-MGRHSTDREVALMILMAYLSYMLAELFYLSGILTVFFCGIVMSHY 289
+ G L ++++L G S E L +L+A+ +Y+LAE +SGIL V G+V+
Sbjct: 203 LLGYLLGRLLRRLDRRGWTSPLLETLLTLLLAFAAYLLAEALGVSGILAVVVAGLVLGEA 262
Query: 290 T-WHNVTESSRVTTKHAFATLSFVAEIFIFLYVGMDALDIEKW 331
+ S+R+ + L F+ +F+ +G
Sbjct: 263 VRINLSPASARLRLSSFWEVLDFLLNGLLFVLLGAQLPLSLLL 305
>gnl|CDD|216235 pfam00999, Na_H_Exchanger, Sodium/hydrogen exchanger family. Na/H
antiporters are key transporters in maintaining the pH
of actively metabolising cells. The molecular mechanisms
of antiport are unclear. These antiporters contain 10-12
transmembrane regions (M) at the amino-terminus and a
large cytoplasmic region at the carboxyl terminus. The
transmembrane regions M3-M12 share identity with other
members of the family. The M6 and M7 regions are highly
conserved. Thus, this is thought to be the region that
is involved in the transport of sodium and hydrogen
ions. The cytoplasmic region has little similarity
throughout the family.
Length = 370
Score = 103 bits (259), Expect = 7e-25
Identities = 64/243 (26%), Positives = 109/243 (44%), Gaps = 17/243 (6%)
Query: 83 DLFFIYLLPPIIFNAGFQVKKKQFFRNFMTIMLFGAVGTLISFVIISAGAVHFFKQMNIG 142
++ LP ++F AG ++ ++ +N +I+L +G LI F++ + + I
Sbjct: 48 EVLAELGLPLLLFLAGLELDLRELRKNGKSILLLALLGVLIPFLL--GLLLALLGGLGIP 105
Query: 143 TLKIGDYLAIGAIFAATDSVCTLQVL--NQDETPLLYSLVFGEGVVNDATSVVLFNAIQS 200
+ + L GA +AT V L +L L +L+ GE V+NDA +VVL + +
Sbjct: 106 ---LLEALLFGAALSATSPVVVLAILKERGRLNTRLGTLILGESVLNDAVAVVLLAVLLA 162
Query: 201 FDLSHINLSIALKFVGSFFYLFIASTMLGVIAGLLSAFIIKKLYMGRHSTDREVALMILM 260
LS + F + + +LG++ G L I + R EV L++ +
Sbjct: 163 L-AGVGGLSDLGLLLLIFLVVALGGLLLGLVFGWLLRLITRFTSGDREL---EVLLVLAL 218
Query: 261 AYLSYMLAELFYLSGILTVFFCGIVMSHYTWHNVTESSRVTTKHAFATLSFVAEIFIFLY 320
A L+ +LAEL LSGIL F G+V+S+Y + N + F+
Sbjct: 219 ALLAALLAELLGLSGILGAFLAGLVLSNYAFANELSEK------LEPFGYGLFLPLFFVS 272
Query: 321 VGM 323
VG+
Sbjct: 273 VGL 275
>gnl|CDD|129911 TIGR00831, a_cpa1, Na+/H+ antiporter, bacterial form. The
Monovalent Cation:Proton Antiporter-1 (CPA1) Family (TC
2.A.36) The CPA1 family is a large family of proteins
derived from Gram-positive and Gram-negative bacteria,
blue green bacteria, yeast, plants and animals.
Transporters from eukaryotes have been functionally
characterized, and all of these catalyze Na+:H+
exchange. Their primary physiological functions may be
in (1) cytoplasmic pH regulation, extruding the H+
generated during metabolism, and (2) salt tolerance (in
plants), due to Na+ uptake into vacuoles. This model is
specific for the bacterial members of this family
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 525
Score = 78.0 bits (192), Expect = 9e-16
Identities = 58/250 (23%), Positives = 111/250 (44%), Gaps = 20/250 (8%)
Query: 80 FSEDLFFIYLLPPIIFNAGFQVKKKQFFRNFMTIMLFGAVGTLISFVIISAGAVHFFKQM 139
++ LPP++F A ++ NF I L V+++ V F
Sbjct: 46 LDREIVLFLFLPPLLFEAAMNTDLRELRENFRPIALIA-----FLLVVVTTVVVGFSLNW 100
Query: 140 NIGTLKIGDYLAIGAIFAATDSVCTLQVLNQDETPL-LYSLVFGEGVVNDATSVVLFNAI 198
+G + + L +GA+ + TD+V L P L L+ GE ++ND ++V+F
Sbjct: 101 ILG-IPLALALILGAVLSPTDAVAVLGTFKSIRAPKKLSILLEGESLLNDGAALVVF--- 156
Query: 199 QSFDLSHINLSIALKFVGSFFYLFIASTMLGVIAGLLSAFIIKKLYMGR-HSTDREVALM 257
+ ++ + L + + F + G+ AGL ++ +L + E+AL
Sbjct: 157 -AIAVA-VALGKGVFDPLNAALDFAVVCVGGIAAGLAVGYLAYRLLRAKIDDPLVEIALT 214
Query: 258 ILMAYLSYMLAELFYLSGILTVFFCGIVMSHYTWHNVTESSRVTTK---HAF-ATLSFVA 313
IL + ++LAE F+ SG++ V G+++++Y S TT+ F + + F+
Sbjct: 215 ILAPFAGFLLAERFHFSGVIAVVAAGLILTNY---GRDFSMSPTTRLIALDFWSVIVFLV 271
Query: 314 EIFIFLYVGM 323
IF+ +G+
Sbjct: 272 NGIIFILIGV 281
>gnl|CDD|225802 COG3263, COG3263, NhaP-type Na+/H+ and K+/H+ antiporters with a
unique C-terminal domain [Inorganic ion transport and
metabolism].
Length = 574
Score = 43.9 bits (104), Expect = 9e-05
Identities = 51/237 (21%), Positives = 98/237 (41%), Gaps = 26/237 (10%)
Query: 93 IIFNAGFQVKKKQFFRNFMTIMLFGAVGTLISFVIISAGAVHFFKQMNIGTLKIGDYLAI 152
I+F+ GF + F + +G LI+ + A + L + L I
Sbjct: 71 ILFDGGFGTQLSSFRVAAGPALSLATLGVLITSGLTGVAAAYLLN------LDWLEGLLI 124
Query: 153 GAIFAATDSVCTLQVLN-QDETPLLYSLVFGEGVVNDATSVVL---FNAIQSFDLSHINL 208
GAI +TD+ +L ++ + S + E ND +V L + + ++++
Sbjct: 125 GAIVGSTDAAAVFSLLGGKNLNERVASTLEIESGSNDPMAVFLTITLIELIAGGETNLSW 184
Query: 209 SIALKFVGSFFYLFIASTMLGVIAGLLSAFIIKKLYMGRHSTDREVALMILMAY--LSYM 266
L F+ F +LG+ G L +I ++ + D + ++ +A L +
Sbjct: 185 GFLLGFLQQFG----LGLLLGLGGGKLLLQLINRI-----NLDSGLYPILALAGGLLIFS 235
Query: 267 LAELFYLSGILTVFFCGIVMSHYTWHNVTESSRVTTKHAFATLSFVAEIFIFLYVGM 323
L SGIL V+ G+++ N +R F L+++A+I +FL +G+
Sbjct: 236 LTGAIGGSGILAVYLAGLLLG-----NRPIRARHGILRFFDGLAWLAQILMFLVLGL 287
>gnl|CDD|233195 TIGR00932, 2a37, transporter, monovalent cation:proton antiporter-2
(CPA2) family. [Transport and binding proteins, Cations
and iron carrying compounds].
Length = 273
Score = 40.3 bits (95), Expect = 8e-04
Identities = 46/219 (21%), Positives = 76/219 (34%), Gaps = 22/219 (10%)
Query: 74 SSHVLMFSEDLFFIYLLPPIIFNAGFQVKKKQFFRNFMTIMLFGAVGTLISFVIISAGAV 133
V +E I L+ F G ++ ++ ++ G + L+ V++
Sbjct: 40 VEGVNHLAE-FGVILLM----FLIGLELDLERLWKLRKAAFGVGVLQVLVPGVLLGLLLG 94
Query: 134 HFFKQMNIGTLKIGDYLAIGAIFAATDSVCTLQVLN--QDETPLLYSLVFGEGVVNDATS 191
H L +G + IG I A + + +QVL V G + D
Sbjct: 95 HLL------GLALGAAVVIGIILALSSTAVVVQVLKERGLLKTPFGQTVLGILLFQDIAV 148
Query: 192 VVLFNAIQSFDLSHINLSIALKFVGSFFYLFIASTMLGVIAGLLSAFIIKKLYMGRHS-- 249
V L + S +AL + +L +L L +++ R S
Sbjct: 149 VPLLALLPLLATSASTEHVALALLLLKVFLAFLLLVLLGR--WLLRPVLRLTAELRPSEL 206
Query: 250 -TDREVALMILMAYLSYMLAELFYLSGILTVFFCGIVMS 287
T + LM AY A+L LS L F G+V+S
Sbjct: 207 FTAGSLLLMFGSAYF----ADLLGLSMALGAFLAGVVLS 241
>gnl|CDD|235410 PRK05326, PRK05326, potassium/proton antiporter; Reviewed.
Length = 562
Score = 40.2 bits (95), Expect = 0.001
Identities = 22/107 (20%), Positives = 42/107 (39%), Gaps = 17/107 (15%)
Query: 187 NDATSVVLFNAIQSFDLSHINLSIALKFVGSFFYLFIASTMLGVIAGLLSAFIIKK---- 242
ND +V L + ++ ++ F+ F F ++G++ G L ++ +
Sbjct: 161 NDPMAVFLTITLIEL-ITGGETGLSWGFLLLFLQQFGLGALIGLLGGWLLVQLLNRIALP 219
Query: 243 ---LYMGRHSTDREVALMILMAYLSYMLAELFYLSGILTVFFCGIVM 286
LY L++ A L + L SG L V+ G+V+
Sbjct: 220 AEGLYP---------ILVLAGALLIFALTAALGGSGFLAVYLAGLVL 257
>gnl|CDD|206215 pfam14045, YIEGIA, YIEGIA protein. This family includes the B.
subtilis YphB protein, which is functionally
uncharacterized. Its expression is regulated by the
sporulation transcription factor sigma-F, however it is
not essential for sporulation or germination. This is
not a homologue of E. coli YphB, which belongs to
pfam01263. This family of proteins is found in bacteria.
Proteins in this family are typically between 276 and
300 amino acids in length and contain a conserved YIEGIA
motif.
Length = 286
Score = 35.3 bits (82), Expect = 0.034
Identities = 13/36 (36%), Positives = 21/36 (58%)
Query: 208 LSIALKFVGSFFYLFIASTMLGVIAGLLSAFIIKKL 243
L I + S Y+ S ++G+IAGL+ I+K+L
Sbjct: 112 LVILTALLTSLAYILFQSIIIGIIAGLILFLILKRL 147
>gnl|CDD|223551 COG0475, KefB, Kef-type K+ transport systems, membrane components
[Inorganic ion transport and metabolism].
Length = 397
Score = 32.2 bits (74), Expect = 0.43
Identities = 51/270 (18%), Positives = 105/270 (38%), Gaps = 32/270 (11%)
Query: 28 LFVALLCACIVIGHLLEENRWMNESITALIIGLCTGIVI---LLTTNGTSSHVLMFSEDL 84
+ LL +++G L + + ++ L GI++ L SS ++ +L
Sbjct: 10 QLLILLLVAVILGPLFKRLG-----LPPVLGYLLAGIILGPWGLLLIIESSEIIELLAEL 64
Query: 85 FFIYLLPPIIFNAGFQVKKKQFFRNFMTI-MLFGAVGTLISFVIISAGAVHFFKQMNIGT 143
++LL F G + ++ + ++ + VG F++ +
Sbjct: 65 GVVFLL----FLIGLEFDLERLKKVGRSVGLGVAQVGLTAPFLLGLLLLLGIL------G 114
Query: 144 LKIGDYLAIGAIFAATDSVCTLQVL---NQDETPLLYSLVFGEGVVNDATSVVLFNAIQS 200
L + L +GA A + + L++L +T L+ G V +D +++L + +
Sbjct: 115 LSLIAALFLGAALALSSTAIVLKILMELGLLKTREG-QLILGALVFDDIAAILLLAIVPA 173
Query: 201 FDLSHINLSIALKFVGSFFYLFIASTMLGVIAGLLSAFIIKKL---YMGRHSTDREVALM 257
VG L +A + LL +++ L S++ + +
Sbjct: 174 LAGGGSG------SVGFILGLLLAILAFLALLLLLGRYLLPPLFRRVAKTESSELFILFV 227
Query: 258 ILMAYLSYMLAELFYLSGILTVFFCGIVMS 287
+L+ + LAEL LS IL F G+++S
Sbjct: 228 LLLVLGAAYLAELLGLSMILGAFLAGLLLS 257
>gnl|CDD|171522 PRK12468, flhB, flagellar biosynthesis protein FlhB; Reviewed.
Length = 386
Score = 30.8 bits (69), Expect = 1.3
Identities = 18/57 (31%), Positives = 23/57 (40%), Gaps = 2/57 (3%)
Query: 262 YLSYMLAELFYLSGILTVFFCGIVMSHYTWHNVTESSRVTTKHAFATLSFVAEIFIF 318
+ S LAEL L IL G V + WHN + R+ A L + IF
Sbjct: 138 FSSQALAEL--LKAILKATLVGWVTGLFLWHNWPDMMRLIAAPPVAALGDALHLIIF 192
>gnl|CDD|221310 pfam11913, DUF3431, Protein of unknown function (DUF3431). This
family of proteins are functionally uncharacterized.
This protein is found in eukaryotes. Proteins in this
family are typically between 291 to 390 amino acids in
length. This protein has a conserved NLRC sequence
motif.
Length = 220
Score = 29.1 bits (66), Expect = 3.0
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 11/43 (25%)
Query: 252 REVALMILMAYLSYMLAELFYLSGILTVFFCGIVMSH-YTWHN 293
RE M YL+Y++ +L TVF + SH + WHN
Sbjct: 46 REA-----MVYLTYIIDHYDHLPDT-TVF----IHSHRFAWHN 78
>gnl|CDD|238665 cd01369, KISc_KHC_KIF5, Kinesin motor domain, kinesin heavy chain
(KHC) or KIF5-like subgroup. Members of this group have
been associated with organelle transport. This catalytic
(head) domain has ATPase activity and belongs to the
larger group of P-loop NTPases. Kinesins are
microtubule-dependent molecular motors that play
important roles in intracellular transport and in cell
division. In most kinesins, the motor domain is found at
the N-terminus (N-type). N-type kinesins are (+)
end-directed motors, i.e. they transport cargo towards
the (+) end of the microtubule. Kinesin motor domains
hydrolyze ATP at a rate of about 80 per second, and move
along the microtubule at a speed of about 6400 Angstroms
per second. To achieve that, kinesin head groups work in
pairs. Upon replacing ADP with ATP, a kinesin motor
domain increases its affinity for microtubule binding
and locks in place. Also, the neck linker binds to the
motor domain, which repositions the other head domain
through the coiled-coil domain close to a second tubulin
dimer, about 80 Angstroms along the microtubule.
Meanwhile, ATP hydrolysis takes place, and when the
second head domain binds to the microtubule, the first
domain again replaces ADP with ATP, triggering a
conformational change that pulls the first domain
forward.
Length = 325
Score = 29.2 bits (66), Expect = 3.7
Identities = 15/38 (39%), Positives = 23/38 (60%), Gaps = 6/38 (15%)
Query: 40 GHLLEENRWMNESITALIIGLCTGIVILLTTNGTSSHV 77
G LEE + +N+S++AL G VI T+G S+H+
Sbjct: 244 GQTLEEAKKINKSLSAL------GNVINALTDGKSTHI 275
>gnl|CDD|216554 pfam01529, zf-DHHC, DHHC palmitoyltransferase. This family
includes the well known DHHC zinc binding domain as well
as three of the four conserved transmembrane regions
found in this family of palmitoyltransferase enzymes.
Length = 167
Score = 27.8 bits (62), Expect = 5.8
Identities = 13/74 (17%), Positives = 29/74 (39%), Gaps = 1/74 (1%)
Query: 218 FFYLFIASTMLGVIAGLLSAFIIKKLYMGRHSTDREVALMILMAYLSYMLAELF-YLSGI 276
+F LF+ L +I L+ +F + + L + + + +L+ F
Sbjct: 86 YFLLFLLYLTLYLILLLVLSFYYLVYLIRNIELFFFLILSLFSSIILLVLSLFFLLFLSF 145
Query: 277 LTVFFCGIVMSHYT 290
L F +++ + T
Sbjct: 146 LLFFHLYLILKNIT 159
>gnl|CDD|201526 pfam00957, Synaptobrevin, Synaptobrevin.
Length = 89
Score = 26.7 bits (60), Expect = 6.8
Identities = 7/31 (22%), Positives = 18/31 (58%)
Query: 100 QVKKKQFFRNFMTIMLFGAVGTLISFVIISA 130
++K+K +++N ++ G V ++ +II
Sbjct: 56 KLKRKMWWKNMKLKIILGLVVLILILIIIIV 86
>gnl|CDD|190601 pfam03323, GerA, Bacillus/Clostridium GerA spore germination
protein.
Length = 468
Score = 28.2 bits (64), Expect = 8.6
Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 192 VVLFNAIQSFDLSHINLSIALKFVGSFFYLFIASTM--LGVIAGLL 235
VV AI SF + LSIA++ + F L +A+ G+I GLL
Sbjct: 376 VVALTAIASFTIPSYELSIAIRLL-RFPLLILAALFGLYGIILGLL 420
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
0.330 0.141 0.413
Gapped
Lambda K H
0.267 0.0738 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,964,072
Number of extensions: 1813622
Number of successful extensions: 3528
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3412
Number of HSP's successfully gapped: 297
Length of query: 351
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 253
Effective length of database: 6,590,910
Effective search space: 1667500230
Effective search space used: 1667500230
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 59 (26.5 bits)