RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6094
(455 letters)
>gnl|CDD|224557 COG1643, HrpA, HrpA-like helicases [DNA replication, recombination,
and repair].
Length = 845
Score = 144 bits (365), Expect = 4e-37
Identities = 51/116 (43%), Positives = 64/116 (55%), Gaps = 2/116 (1%)
Query: 189 ILVFLPGWDTINSLHRSMCQSSFFNSSRFQIIPLHSMLPTVSQKSIFNTPPEGVRKIVLA 248
ILVFLPG I + +I+PL+ L Q +F P G RK+VLA
Sbjct: 262 ILVFLPGQREIERTAEWL--EKAELGDDLEILPLYGALSAEEQVRVFEPAPGGKRKVVLA 319
Query: 249 TNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIATLKPEWISLANAKQRRGRAGRT 304
TNIAETS+TI I YV+D G K +D + + L+ E IS A+A QR GRAGRT
Sbjct: 320 TNIAETSLTIPGIRYVIDSGLAKEKRYDPRTGLTRLETEPISKASADQRAGRAGRT 375
Score = 53.9 bits (130), Expect = 1e-07
Identities = 19/49 (38%), Positives = 28/49 (57%)
Query: 36 EMIRKLQSRRYQEMLEARKKLPSYQMRDAVLDMVRNNQITVISGETGSG 84
M + +S ++LE R LP +RD +L + NQ+ +I GETGSG
Sbjct: 29 GMDARSRSANVPDILEYRSGLPVTAVRDEILKAIEQNQVVIIVGETGSG 77
Score = 32.3 bits (74), Expect = 0.58
Identities = 16/61 (26%), Positives = 27/61 (44%), Gaps = 2/61 (3%)
Query: 305 LKRSETQQYPNDVLNMLKDPELEGVNNDVIFSLLQHICTTQRPGAILVFLPGWDTINSLH 364
+ E + YP ++ L + E + + D I + + + G+ILVFLPG I
Sbjct: 219 VIEIEGRTYPVEIR-YLPEAEADYILLDAIVAAVDIH-LREGSGSILVFLPGQREIERTA 276
Query: 365 R 365
Sbjct: 277 E 277
>gnl|CDD|233660 TIGR01970, DEAH_box_HrpB, ATP-dependent helicase HrpB. This model
represents HrpB, one of two related but uncharacterized
DEAH-box ATP-dependent helicases in many Proteobacteria,
but also in a few species of other lineages. The member
from Rhizobium meliloti has been designated HelO. HrpB
is typically about 800 residues in length, while its
paralog HrpA (TIGR01967), also uncharacterized, is about
1300 amino acids long. Related characterized eukarotic
proteins are RNA helicases associated with pre-mRNA
processing [Unknown function, Enzymes of unknown
specificity].
Length = 819
Score = 108 bits (271), Expect = 5e-25
Identities = 50/116 (43%), Positives = 64/116 (55%), Gaps = 3/116 (2%)
Query: 189 ILVFLPGWDTINSLHRSMCQSSFFNSSRFQIIPLHSMLPTVSQKSIFNTPPEGVRKIVLA 248
ILVFLPG I + + S I PL+ L +Q P+G RK+VLA
Sbjct: 212 ILVFLPGQAEIRRVQEQL-AERL--DSDVLICPLYGELSLAAQDRAIKPDPQGRRKVVLA 268
Query: 249 TNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIATLKPEWISLANAKQRRGRAGRT 304
TNIAETS+TI+ I V+D G +++ FD K I L+ IS A+A QR GRAGR
Sbjct: 269 TNIAETSLTIEGIRVVIDSGLARVARFDPKTGITRLETVRISQASATQRAGRAGRL 324
>gnl|CDD|236950 PRK11664, PRK11664, ATP-dependent RNA helicase HrpB; Provisional.
Length = 812
Score = 94.6 bits (236), Expect = 1e-20
Identities = 49/116 (42%), Positives = 67/116 (57%), Gaps = 5/116 (4%)
Query: 189 ILVFLPGWDTINSLHRSMCQSSFFNSSRFQIIPLHSMLP-TVSQKSIFNTPPEGVRKIVL 247
+L+FLPG + + R Q + +S + PL+ L QK+I P G RK+VL
Sbjct: 215 LLLFLPG---VGEIQRVQEQLASRVASDVLLCPLYGALSLAEQQKAILPAPA-GRRKVVL 270
Query: 248 ATNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIATLKPEWISLANAKQRRGRAGR 303
ATNIAETS+TI+ I VVD G +++ FD K + L + IS A+ QR GRAGR
Sbjct: 271 ATNIAETSLTIEGIRLVVDSGLERVARFDPKTGLTRLVTQRISQASMTQRAGRAGR 326
>gnl|CDD|233659 TIGR01967, DEAH_box_HrpA, ATP-dependent helicase HrpA. This model
represents HrpA, one of two related but uncharacterized
DEAH-box ATP-dependent helicases in many Proteobacteria
and a few high-GC Gram-positive bacteria. HrpA is about
1300 amino acids long, while its paralog HrpB, also
uncharacterized, is about 800 amino acids long. Related
characterized eukarotic proteins are RNA helicases
associated with pre-mRNA processing [Unknown function,
Enzymes of unknown specificity].
Length = 1283
Score = 86.4 bits (214), Expect = 8e-18
Identities = 46/119 (38%), Positives = 66/119 (55%), Gaps = 13/119 (10%)
Query: 189 ILVFLPG----WDTINSLHRSMCQSSFFNSSRFQIIPLHSMLPTVSQKSIFNTPPEGVRK 244
IL+FLPG D L + N +I+PL++ L Q+ +F P R+
Sbjct: 282 ILIFLPGEREIRDAAEILRKR-------NLRHTEILPLYARLSNKEQQRVFQ--PHSGRR 332
Query: 245 IVLATNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIATLKPEWISLANAKQRRGRAGR 303
IVLATN+AETS+T+ I YV+D G ++S + + + L E IS A+A QR+GR GR
Sbjct: 333 IVLATNVAETSLTVPGIHYVIDTGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGR 391
Score = 46.3 bits (110), Expect = 3e-05
Identities = 25/98 (25%), Positives = 41/98 (41%), Gaps = 18/98 (18%)
Query: 1 MKSPHSPKGLTHSVTSWETRQKLLNDPVLDAAFKKEMIRKLQSR---RYQEMLEARKKLP 57
++ H ++ + R +DAA K R Q+ RY + LP
Sbjct: 23 LRKDHDQDRAIAALAKFRER--------IDAACDKVEAR-RQAVPEIRYPD------NLP 67
Query: 58 SYQMRDAVLDMVRNNQITVISGETGSGPPLHLDFITLK 95
R+ + + + NQ+ +I+GETGSG L I L+
Sbjct: 68 VSAKREDIAEAIAENQVVIIAGETGSGKTTQLPKICLE 105
>gnl|CDD|182986 PRK11131, PRK11131, ATP-dependent RNA helicase HrpA; Provisional.
Length = 1294
Score = 81.3 bits (201), Expect = 3e-16
Identities = 44/120 (36%), Positives = 67/120 (55%), Gaps = 13/120 (10%)
Query: 189 ILVFLPG----WDTINSLHRSMCQSSFFNSSRFQIIPLHSMLPTVSQKSIFNTPPEGVRK 244
IL+F+ G DT ++L++ N +I+PL++ L Q +F R+
Sbjct: 289 ILIFMSGEREIRDTADALNKL-------NLRHTEILPLYARLSNSEQNRVFQ--SHSGRR 339
Query: 245 IVLATNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIATLKPEWISLANAKQRRGRAGRT 304
IVLATN+AETS+T+ I YV+D G ++S + + + L E IS A+A QR+GR GR
Sbjct: 340 IVLATNVAETSLTVPGIKYVIDPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRV 399
Score = 43.5 bits (103), Expect = 2e-04
Identities = 14/50 (28%), Positives = 28/50 (56%)
Query: 35 KEMIRKLQSRRYQEMLEARKKLPSYQMRDAVLDMVRNNQITVISGETGSG 84
+ R L + + + LP Q + +L+ +R++Q+ +++GETGSG
Sbjct: 52 QAAQRVLLREAARPEITYPENLPVSQKKQDILEAIRDHQVVIVAGETGSG 101
>gnl|CDD|197757 smart00490, HELICc, helicase superfamily c-terminal domain.
Length = 82
Score = 64.5 bits (158), Expect = 3e-13
Identities = 21/93 (22%), Positives = 38/93 (40%), Gaps = 18/93 (19%)
Query: 211 FFNSSRFQIIPLHSMLPTVSQKSIFNTPPEGVRKIVLATNIAETSITIDDIVYVVDCGKT 270
++ LH L ++ I + G K+++AT++AE + + + V+
Sbjct: 6 LLKELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVI----- 60
Query: 271 KMSNFDVKDNIATLKPEWISLANAKQRRGRAGR 303
+D+ S A+ QR GRAGR
Sbjct: 61 ---IYDL----------PWSPASYIQRIGRAGR 80
>gnl|CDD|201125 pfam00271, Helicase_C, Helicase conserved C-terminal domain. The
Prosite family is restricted to DEAD/H helicases,
whereas this domain family is found in a wide variety of
helicases and helicase related proteins. It may be that
this is not an autonomously folding unit, but an
integral part of the helicase.
Length = 78
Score = 61.4 bits (150), Expect = 3e-12
Identities = 22/93 (23%), Positives = 38/93 (40%), Gaps = 18/93 (19%)
Query: 211 FFNSSRFQIIPLHSMLPTVSQKSIFNTPPEGVRKIVLATNIAETSITIDDIVYVVDCGKT 270
++ LH L ++ I G K+++AT++A I + D+ V+
Sbjct: 2 LLRKPGIKVARLHGGLSQEEREEILEDFRNGKSKVLVATDVAGRGIDLPDVNLVI----- 56
Query: 271 KMSNFDVKDNIATLKPEWISLANAKQRRGRAGR 303
N+D+ + A+ QR GRAGR
Sbjct: 57 ---NYDL----------PWNPASYIQRIGRAGR 76
>gnl|CDD|238034 cd00079, HELICc, Helicase superfamily c-terminal domain; associated
with DEXDc-, DEAD-, and DEAH-box proteins, yeast
initiation factor 4A, Ski2p, and Hepatitis C virus NS3
helicases; this domain is found in a wide variety of
helicases and helicase related proteins; may not be an
autonomously folding unit, but an integral part of the
helicase; 4 helicase superfamilies at present according
to the organization of their signature motifs; all
helicases share the ability to unwind nucleic acid
duplexes with a distinct directional polarity; they
utilize the free energy from nucleoside triphosphate
hydrolysis to fuel their translocation along DNA,
unwinding the duplex in the process.
Length = 131
Score = 48.0 bits (115), Expect = 6e-07
Identities = 22/116 (18%), Positives = 44/116 (37%), Gaps = 24/116 (20%)
Query: 188 PILVFLPGWDTINSLHRSMCQSSFFNSSRFQIIPLHSMLPTVSQKSIFNTPPEGVRKIVL 247
+L+F P ++ L ++ LH ++ + EG +++
Sbjct: 30 KVLIFCPSKKMLDELAE------LLRKPGIKVAALHGDGSQEEREEVLKDFREGEIVVLV 83
Query: 248 ATNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIATLKPEWISLANAKQRRGRAGR 303
AT++ I + ++ V+ N+D+ S ++ QR GRAGR
Sbjct: 84 ATDVIARGIDLPNVSVVI--------NYDL----------PWSPSSYLQRIGRAGR 121
>gnl|CDD|177443 PHA02653, PHA02653, RNA helicase NPH-II; Provisional.
Length = 675
Score = 35.7 bits (83), Expect = 0.059
Identities = 22/78 (28%), Positives = 37/78 (47%), Gaps = 6/78 (7%)
Query: 245 IVLATNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIATLKPEWISLANAKQRRGRAGRT 304
I+++T E+S+TI + +V D G+ + K +IS + QR+GR GR
Sbjct: 449 IIISTPYLESSVTIRNATHVYDTGRVYVPEP------FGGKEMFISKSMRTQRKGRVGRV 502
Query: 305 LKRSETQQYPNDVLNMLK 322
+ Y D+L +K
Sbjct: 503 SPGTYVYFYDLDLLKPIK 520
>gnl|CDD|238550 cd01130, VirB11-like_ATPase, Type IV secretory pathway component
VirB11, and related ATPases. The homohexamer, VirB11 is
one of eleven Vir proteins, which are required for
T-pilus biogenesis and virulence in the transfer of
T-DNA from the Ti (tumor-inducing) plasmid of bacterial
to plant cells. The pilus is a fibrous cell surface
organelle, which mediates adhesion between bacteria
during conjugative transfer or between bacteria and
host eukaryotic cells during infection. VirB11- related
ATPases include the archaeal flagella biosynthesis
protein and the pilus assembly proteins CpaF/TadA and
TrbB. This alignment contains the C-terminal domain,
which is the ATPase.
Length = 186
Score = 29.9 bits (68), Expect = 2.0
Identities = 9/27 (33%), Positives = 12/27 (44%)
Query: 58 SYQMRDAVLDMVRNNQITVISGETGSG 84
S + V + +ISG TGSG
Sbjct: 11 SPLQAAYLWLAVEARKNILISGGTGSG 37
>gnl|CDD|212082 cd11513, SLC6sbd_SERT, Na(+)- and Cl(-)-dependent serotonin
transporter SERT; solute-binding domain. SERT (also
called 5-HTT), is a transmembrane transporter that
transports the neurotransmitter serotonin from synaptic
spaces into presynaptic neurons. The antiport of a K+
ion is believed to follow the transport of serotonin and
promote the reorientation of SERT for another transport
cycle. Human SERT is encoded by the SLC6A4 gene. SERT is
expressed in brain, peripheral nervous system, placenta,
epithelium, and platelets. SERT may play a role in
diseases or disorders including anxiety, depression,
autism, gastrointestinal disorders, premature
ejaculation, and obesity. It may also have a role in
social cognition. This subgroup belongs to the solute
carrier 6 (SLC6) transporter family.
Length = 537
Score = 30.2 bits (68), Expect = 2.9
Identities = 14/59 (23%), Positives = 28/59 (47%), Gaps = 2/59 (3%)
Query: 144 TYTFMGVSPMKVFFCKNVLQ-RLMKGVGANSPKRWVKLLRSMLVVPILVFLPGWDTINS 201
T+T SP + F+ ++VLQ G+G W +L + ++ +V+ W + +
Sbjct: 141 TWTLHSTSPAEEFYTRHVLQVHRSTGLGDLGGISW-QLALCLFLIFTIVYFSIWKGVKT 198
>gnl|CDD|163538 TIGR03826, YvyF, flagellar operon protein TIGR03826. This gene is
found in flagellar operons of Bacillus-related
organisms. Its function has not been determined and an
official gene symbol has not been assigned, although the
gene is designated yvyF in B. subtilus. A tentative
assignment as a regulator is suggested in the NCBI
record GI:16080597.
Length = 137
Score = 28.9 bits (65), Expect = 3.1
Identities = 26/84 (30%), Positives = 33/84 (39%), Gaps = 9/84 (10%)
Query: 23 LLNDPVLDAAFKKEMIRKLQSRRYQEMLEARKKLPSYQMRDAVLDMVRNNQITV--ISGE 80
L N P F K R + Y+E E R ++ L N Q TV I E
Sbjct: 3 LANCPKCGRLFVK-TGRDVCPSCYEE--EER----EFEKVYKFLRKHENRQATVSEIVEE 55
Query: 81 TGSGPPLHLDFITLKRSETQQYPN 104
TG L L FI R + + +PN
Sbjct: 56 TGVSEKLILKFIREGRLQLKHFPN 79
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 29.9 bits (68), Expect = 3.1
Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 8/37 (21%)
Query: 240 EGVRKIVLATNIAETSITIDDIVYVVDCGKTKMSNFD 276
+G +++AT++A I IDD+ +V+ NFD
Sbjct: 293 DGRVNVLVATDVAARGIDIDDVSHVI--------NFD 321
>gnl|CDD|217861 pfam04050, Upf2, Up-frameshift suppressor 2. Transcripts
harbouring premature signals for translation termination
are recognised and rapidly degraded by eukaryotic cells
through a pathway known as nonsense-mediated mRNA decay.
In Saccharomyces cerevisiae, three trans-acting factors
(Upf1 to Upf3) are required for nonsense-mediated mRNA
decay.
Length = 171
Score = 28.9 bits (65), Expect = 3.8
Identities = 29/94 (30%), Positives = 41/94 (43%), Gaps = 17/94 (18%)
Query: 18 ETRQKLLNDPV----LDAAFKKEMIRKLQSRRYQEMLEARKKLPSYQMRDAVLDMVRNNQ 73
TRQ+ DP D F+K M L+SR+ E+RKK D L M R ++
Sbjct: 51 VTRQEEEVDPEAEAEFDREFEKMMAESLESRK----FESRKK----PTFDVPLPMRRKSR 102
Query: 74 ITVISGETG----SGPPLHLDFITL-KRSETQQY 102
+ GE+G +G + F L K+ QQ
Sbjct: 103 SKKVEGESGNEEEAGSSSTMAFSLLTKKGNKQQT 136
>gnl|CDD|130817 TIGR01756, LDH_protist, lactate dehydrogenase. This model
represents a family of protist lactate dehydrogenases
which have aparrently evolved from a recent protist
malate dehydrogenase ancestor. Lactate dehydrogenase
converts the hydroxyl at C-2 of lactate to a carbonyl in
the product, pyruvate. The preference of this enzyme for
NAD or NADP has not been determined. A critical residue
in malate dehydrogenase, arginine-91 (T. vaginalis
numbering) has been mutated to a leucine, eliminating
the positive charge which complemeted the carboxylate in
malate which is absent in lactate. Several other more
subtle changes are proposed to make the active site
smaller to accomadate the less bulky lactate molecule.
Length = 313
Score = 29.1 bits (65), Expect = 5.6
Identities = 31/137 (22%), Positives = 50/137 (36%), Gaps = 22/137 (16%)
Query: 233 SIFNTPPEGVRKIVLATNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIATLKPEWISLA 292
S P + + +V+ N AE+ + GK + FD +P++ +
Sbjct: 149 SKLKVPVDHIYHVVVWGNHAESMVADLTHAEFTKNGKHQKV-FDELCRDYP-EPDFFEVI 206
Query: 293 NAK-----QRRGR--AGRTLKRSETQQY-------PNDVLNM-LKDPELE--GVNNDVIF 335
+ + RG A +K S P +VL+M + PE G+ VIF
Sbjct: 207 AQRAWKILEMRGFTSAASPVKASLQHMKAWLFGTRPGEVLSMGIPVPEGNPYGIKPGVIF 266
Query: 336 SLLQHICTTQRPGAILV 352
S CT G + V
Sbjct: 267 SF---PCTVDEDGKVHV 280
>gnl|CDD|212113 cd10802, YdjC_TTHB029_like, Thermus thermophiles TTHB029 and
similar proteins. This subfamily is represented by an
YdjC-family protein TTHB029 from Thermus thermophilus
HB8; it is similar to Escherichia coli YdjC, a
hypothetical protein encoded by the celG gene. TTHB029
functions as a homodimer. Each of monomer consists of
(beta/alpha)-barrel fold. The molecular function of
TTHB029 is unclear.
Length = 251
Score = 28.8 bits (65), Expect = 5.9
Identities = 13/47 (27%), Positives = 19/47 (40%), Gaps = 6/47 (12%)
Query: 395 RDCLSFECKPSTAKIIKELRARLDMLLA------HKLSHPGTTAWGD 435
D E ++ KELRA+++ L H SH G+ G
Sbjct: 92 PDVAELEANADPDEVEKELRAQIERALKAGIRPTHLDSHMGSLYGGP 138
>gnl|CDD|240229 PTZ00014, PTZ00014, myosin-A; Provisional.
Length = 821
Score = 28.8 bits (65), Expect = 6.3
Identities = 12/35 (34%), Positives = 21/35 (60%), Gaps = 5/35 (14%)
Query: 55 KLPS---YQMRDAVLDM--VRNNQITVISGETGSG 84
KLP R A+ ++ V+ +Q ++SGE+G+G
Sbjct: 161 KLPPHVFTTARRALENLHGVKKSQTIIVSGESGAG 195
>gnl|CDD|235287 PRK04342, PRK04342, DNA topoisomerase VI subunit A; Provisional.
Length = 367
Score = 28.7 bits (65), Expect = 7.1
Identities = 15/52 (28%), Positives = 22/52 (42%), Gaps = 12/52 (23%)
Query: 167 KGVGANSPKRWVKLLRSMLVVPILVFLPG--WD----------TINSLHRSM 206
KG A + +R++K L L +P+ VF G W +I H S
Sbjct: 222 KGQPARATRRFIKRLNEELGLPVYVFTDGDPWGYYIYSVVKYGSIKLAHLSE 273
>gnl|CDD|238071 cd00124, MYSc, Myosin motor domain. This catalytic (head) domain
has ATPase activity and belongs to the larger group of
P-loop NTPases. Myosins are actin-dependent molecular
motors that play important roles in muscle contraction,
cell motility, and organelle transport. The head domain
is a molecular motor, which utilizes ATP hydrolysis to
generate directed movement toward the plus end along
actin filaments. A cyclical interaction between myosin
and actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second
for myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 679
Score = 28.8 bits (65), Expect = 7.6
Identities = 11/25 (44%), Positives = 17/25 (68%), Gaps = 2/25 (8%)
Query: 62 RDAVLDMVRN--NQITVISGETGSG 84
A +M+R+ NQ +ISGE+G+G
Sbjct: 74 DRAYRNMLRDRRNQSIIISGESGAG 98
>gnl|CDD|238679 cd01383, MYSc_type_VIII, Myosin motor domain, plant-specific type
VIII myosins, a subgroup which has been associated with
endocytosis, cytokinesis, cell-to-cell coupling and
gating at plasmodesmata. This catalytic (head) domain
has ATPase activity and belongs to the larger group of
P-loop NTPases. Myosins are actin-dependent molecular
motors that play important roles in muscle contraction,
cell motility, and organelle transport. The head domain
is a molecular motor, which utilizes ATP hydrolysis to
generate directed movement toward the plus end along
actin filaments. A cyclical interaction between myosin
and actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 677
Score = 28.6 bits (64), Expect = 7.7
Identities = 20/69 (28%), Positives = 26/69 (37%), Gaps = 34/69 (49%)
Query: 20 RQKLLNDP----VLDAAFKKEMIRKLQSRRYQEMLEARKKLPSYQMRDAVLDMVRNNQIT 75
R+K + P + D A Y EM MRD V NQ
Sbjct: 66 RKKSNDSPHVYAIADTA-------------YNEM-----------MRDEV------NQSI 95
Query: 76 VISGETGSG 84
+ISGE+G+G
Sbjct: 96 IISGESGAG 104
>gnl|CDD|212066 cd11497, SLC6sbd_SERT-like, Na(+)- and Cl(-)-dependent monoamine
transporters, SERT, NET, DAT1 and related proteins;
solute binding domain. This subgroup represents the
solute-binding domain of transmembrane transporters that
transport monoamine neurotransmitters from synaptic
spaces into presynaptic neurons. Members include: NET
which transports norepinephrine, SERT which transports
serotonin, and DAT1 which transports dopamine. These
transporters may play a role in diseases including
depression, anxiety disorders, attention-deficit
hyperactivity disorder, and in the control of human
behavior and emotional states. This subgroup belongs to
the solute carrier 6 (SLC6) transporter family.
Length = 539
Score = 28.4 bits (64), Expect = 8.1
Identities = 17/72 (23%), Positives = 30/72 (41%), Gaps = 2/72 (2%)
Query: 131 CTTQRPGAILVYCTYTFMGVSPMKVFFCKNVLQ-RLMKGVGANSPKRWVKLLRSMLVVPI 189
CT T+ SP + FF + VL+ + +G+ +W +L + V I
Sbjct: 131 CTDVSNRNNSSSSNGTWTLHSPAEEFFERKVLELQKSEGIDDLGGPKW-QLALCLFAVFI 189
Query: 190 LVFLPGWDTINS 201
+V+ W + S
Sbjct: 190 IVYFSLWKGVKS 201
>gnl|CDD|222160 pfam13476, AAA_23, AAA domain.
Length = 204
Score = 27.9 bits (62), Expect = 8.2
Identities = 6/14 (42%), Positives = 9/14 (64%)
Query: 71 NNQITVISGETGSG 84
+ +T+I G GSG
Sbjct: 18 SKGLTLIYGPNGSG 31
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
0.321 0.135 0.409
Gapped
Lambda K H
0.267 0.0781 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 23,147,259
Number of extensions: 2229663
Number of successful extensions: 2201
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2194
Number of HSP's successfully gapped: 33
Length of query: 455
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 355
Effective length of database: 6,502,202
Effective search space: 2308281710
Effective search space used: 2308281710
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: 61 (27.2 bits)