RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5555
(185 letters)
>gnl|CDD|219619 pfam07885, Ion_trans_2, Ion channel. This family includes the two
membrane helix type ion channels found in bacteria.
Length = 74
Score = 74.9 bits (185), Expect = 2e-18
Identities = 25/54 (46%), Positives = 35/54 (64%)
Query: 61 RQWSFSGALLYSVTVITTIGYGNLAPKTPIGKIVTMVYALFGIPLMLLCISNLG 114
W F AL +S +TTIGYG++ P T G++ T++Y L GIPL LL ++ LG
Sbjct: 21 WGWDFLDALYFSFVTLTTIGYGDIVPLTDAGRLFTIIYILIGIPLFLLFLAVLG 74
Score = 51.1 bits (123), Expect = 3e-09
Identities = 20/42 (47%), Positives = 26/42 (61%), Gaps = 3/42 (7%)
Query: 138 YICIGAGVFAAWEE---WSFLDGAYFCFVTLSTIGFGDLVPG 176
+ G ++ EE W FLD YF FVTL+TIG+GD+VP
Sbjct: 6 VLIFGTVYYSLEEEGWGWDFLDALYFSFVTLTTIGYGDIVPL 47
>gnl|CDD|215625 PLN03192, PLN03192, Voltage-dependent potassium channel;
Provisional.
Length = 823
Score = 39.1 bits (91), Expect = 8e-04
Identities = 21/63 (33%), Positives = 34/63 (53%), Gaps = 4/63 (6%)
Query: 68 ALLYSVTVITTIGYGNLAPKTPIGKIVTMVYALFGIPLMLLCISNLGSLLAD----TFQF 123
A+ +S+T +TT+GYG+L I I + Y LF + L I N+ +L+ + T +F
Sbjct: 254 AIYWSITTMTTVGYGDLHAVNTIEMIFIIFYMLFNLGLTAYLIGNMTNLVVEGTRRTMEF 313
Query: 124 TYS 126
S
Sbjct: 314 RNS 316
>gnl|CDD|236711 PRK10537, PRK10537, voltage-gated potassium channel; Provisional.
Length = 393
Score = 34.6 bits (80), Expect = 0.021
Identities = 11/17 (64%), Positives = 15/17 (88%)
Query: 159 YFCFVTLSTIGFGDLVP 175
YF VT+ST+G+GD+VP
Sbjct: 174 YFSIVTMSTVGYGDIVP 190
Score = 30.8 bits (70), Expect = 0.37
Identities = 19/85 (22%), Positives = 38/85 (44%), Gaps = 1/85 (1%)
Query: 64 SFSGALLYSVTVITTIGYGNLAPKTPIGKIVTMVYALFGIPLMLLCISNL-GSLLADTFQ 122
S S A +S+ ++T+GYG++ P + ++ T+ + GI + IS + G ++ +
Sbjct: 168 SLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGITVFATSISAIFGPVIRGNLK 227
Query: 123 FTYSHSCCASRQKSGYICIGAGVFA 147
+K +I G A
Sbjct: 228 RLVKGRISHMHRKDHFIICGHSPLA 252
>gnl|CDD|215968 pfam00520, Ion_trans, Ion transport protein. This family contains
Sodium, Potassium, Calcium ion channels. This family is
6 transmembrane helices in which the last two helices
flank a loop which determines ion selectivity. In some
sub-families (e.g. Na channels) the domain is repeated
four times, whereas in others (e.g. K channels) the
protein forms as a tetramer in the membrane. A bacterial
structure of the protein is known for the last two
helices but is not the Pfam family due to it lacking the
first four helices.
Length = 194
Score = 31.9 bits (73), Expect = 0.10
Identities = 16/49 (32%), Positives = 28/49 (57%), Gaps = 5/49 (10%)
Query: 64 SFSGALLYSVTVITTIGYGNL-----APKTPIGKIVTMVYALFGIPLML 107
S+ ALL+ +TT G+G++ P T +GKI +++ + G L+L
Sbjct: 139 SYGEALLWLFRTLTTEGWGDVMYDTLVPGTVLGKIFFVIFIILGGVLLL 187
>gnl|CDD|216239 pfam01007, IRK, Inward rectifier potassium channel.
Length = 336
Score = 32.3 bits (74), Expect = 0.11
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 64 SFSGALLYSVTVITTIGYG 82
SF+ A L+S+ TTIGYG
Sbjct: 83 SFTSAFLFSIETQTTIGYG 101
>gnl|CDD|215396 PLN02743, PLN02743, nicotinamidase.
Length = 239
Score = 31.6 bits (72), Expect = 0.16
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 78 TIGYGNLAPKTPIGKIVTMV 97
T+G GNLAP+ P +I MV
Sbjct: 41 TVGAGNLAPREPDKQISKMV 60
>gnl|CDD|225815 COG3276, SelB, Selenocysteine-specific translation elongation
factor [Translation, ribosomal structure and
biogenesis].
Length = 447
Score = 30.4 bits (69), Expect = 0.53
Identities = 13/66 (19%), Positives = 21/66 (31%), Gaps = 20/66 (30%)
Query: 45 MSSQLGYNGRDPADKDRQWSFSGALLYSVTVITTIGYGNLAPKTPIGKIVTMVYALFGIP 104
++ LG+ R D + I G+ P I ++ L GI
Sbjct: 36 ITIDLGFYYRKLED------------GVMGFIDVPGH----PD----FISNLLAGLGGID 75
Query: 105 LMLLCI 110
LL +
Sbjct: 76 YALLVV 81
>gnl|CDD|219288 pfam07077, DUF1345, Protein of unknown function (DUF1345). This
family consists of several hypothetical bacterial
proteins of around 230 residues in length. The function
of this family is unknown.
Length = 181
Score = 29.9 bits (68), Expect = 0.56
Identities = 9/45 (20%), Positives = 19/45 (42%)
Query: 105 LMLLCISNLGSLLADTFQFTYSHSCCASRQKSGYICIGAGVFAAW 149
L+++ ++ L SL A + + S + + A V +W
Sbjct: 53 LLVVLLAALASLAAIVLELAGAKSLSGAAKALHIALALATVALSW 97
>gnl|CDD|225717 COG3176, COG3176, Putative hemolysin [General function prediction
only].
Length = 292
Score = 29.7 bits (67), Expect = 0.72
Identities = 11/45 (24%), Positives = 18/45 (40%), Gaps = 1/45 (2%)
Query: 18 RLNVLYEQNWTTLVTEQLRRFESNVIEMSSQL-GYNGRDPADKDR 61
RL V +N + Q R+ E+ ++L D+DR
Sbjct: 37 RLEVRLARNEAEVDAAQFLRYRVFSEELDARLDAAALERIPDQDR 81
>gnl|CDD|150821 pfam10205, KLRAQ, Predicted coiled-coil domain-containing
protein. This is the N-terminal 100 amino acid domain
of a family of proteins conserved from nematodes to
humans. It carries a characteristic KLRAQ
sequence-motif. The function is not known.
Length = 102
Score = 27.8 bits (62), Expect = 1.4
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 5/49 (10%)
Query: 7 YSGPRKQEDVERLNVLYEQNWTTLVTEQLRRFESN----VIEMSSQLGY 51
YS R Q V + VL EQ+ + EQL++ E + E+ S LG+
Sbjct: 7 YSKLRAQAQVLKKAVLDEQSKNASLREQLKQKEQSLRKTEQEVDS-LGF 54
>gnl|CDD|222953 PHA02986, PHA02986, hypothetical protein; Provisional.
Length = 141
Score = 28.3 bits (63), Expect = 1.7
Identities = 23/101 (22%), Positives = 40/101 (39%), Gaps = 19/101 (18%)
Query: 22 LYEQNWTTLVTEQLRRFESNVIE-MSSQLGYNGRDPAD-------KDRQW---SFSGALL 70
+ + TTL+ E++++ + + M SQ+ Y + D + +W +
Sbjct: 40 ISNKKKTTLIKEEIKKILLEIPDSMISQVWYPIANLCDCVTYYNCSNEKWINDQLNDIDE 99
Query: 71 YSVTVITTIGYGNLA------PKTPIG-KIVTMVY-ALFGI 103
YGNLA P G K + ++ ALFGI
Sbjct: 100 SLSNYFNKTSYGNLARIAITYPFDDKGRKSINILNKALFGI 140
>gnl|CDD|198332 cd10299, GST_C_CLIC3, C-terminal, alpha helical domain of Chloride
Intracellular Channel 3. Glutathione S-transferase
(GST) C-terminal domain family, Chloride Intracellular
Channel (CLIC) 3 subfamily; CLICs are auto-inserting,
self-assembling intracellular anion channels involved in
a wide variety of functions including regulated
secretion, cell division, and apoptosis. They can exist
in both water-soluble and membrane-bound states and are
found in various vesicles and membranes, and they may
play roles in the maintenance of these intracellular
membranes. The membrane localization domain is present
in the N-terminal part of the protein. Structures of
soluble CLICs reveal that they adopt a fold similar to
GSTs, containing an N-terminal domain with a thioredoxin
fold and a C-terminal alpha helical domain. CLIC3 is
highly expressed in placental tissues, and may play a
role in fetal development.
Length = 133
Score = 27.8 bits (62), Expect = 2.0
Identities = 15/48 (31%), Positives = 22/48 (45%), Gaps = 2/48 (4%)
Query: 83 NLAPKTPIGKIVTMVYALFGIPLMLLCISNL--GSLLADTFQFTYSHS 128
NL PK I K+V Y F IP L ++ + F++T +S
Sbjct: 78 NLLPKLHIVKVVCKHYRQFEIPAELKGVTRYLDSASQEKEFKYTCPNS 125
>gnl|CDD|226775 COG4325, COG4325, Predicted membrane protein [Function unknown].
Length = 464
Score = 28.3 bits (63), Expect = 2.7
Identities = 13/56 (23%), Positives = 26/56 (46%), Gaps = 7/56 (12%)
Query: 64 SFSGALLYSVTVITTIG-----YGNLAPKTPIGKIVTMVYALFGIPLMLLCISNLG 114
F +YS+ V+ T+G G PK + V+++ A+ I ++ + +L
Sbjct: 132 IFLCTFVYSLGVLRTVGEERDGQGAFIPK--VAVTVSLLLAIISIGALIYFLHHLM 185
>gnl|CDD|183255 PRK11646, PRK11646, multidrug resistance protein MdtH; Provisional.
Length = 400
Score = 26.9 bits (60), Expect = 6.2
Identities = 16/51 (31%), Positives = 29/51 (56%), Gaps = 5/51 (9%)
Query: 89 PIGKIVTMVYALFGIPLMLLCISNLGSLLADTFQFTYSHSCCASRQKSGYI 139
PIG +V+ + LF L+C+ +GS++A+ + T S S +R + Y+
Sbjct: 290 PIG-MVSNLQQLF----TLICLFYIGSIIAEPARETLSASLADARARGSYM 335
>gnl|CDD|218189 pfam04646, DUF604, Protein of unknown function, DUF604. This
family includes a conserved region found in several
uncharacterized plant proteins.
Length = 256
Score = 26.5 bits (59), Expect = 9.8
Identities = 6/22 (27%), Positives = 12/22 (54%)
Query: 58 DKDRQWSFSGALLYSVTVITTI 79
D+ +W+ S + Y+V + I
Sbjct: 129 DRRYKWTVSVSWGYTVQIYRGI 150
>gnl|CDD|216469 pfam01384, PHO4, Phosphate transporter family. This family
includes PHO-4 from Neurospora crassa which is a is a
Na(+)-phosphate symporter. This family also contains the
leukaemia virus receptor.
Length = 268
Score = 26.4 bits (59), Expect = 9.8
Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 65 FSGALLYSVTVITTIGYGNLAPKTPIGKIVTMVYALFGIPLMLLCISNLG 114
F GALL V TIG G + + ++ M+ AL L LL + G
Sbjct: 33 FLGALLAGGEVAKTIGKG-IVDPSLFTGMLGMLAALLAAILWLLIATYFG 81
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
0.323 0.137 0.429
Gapped
Lambda K H
0.267 0.0639 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,435,173
Number of extensions: 847557
Number of successful extensions: 738
Number of sequences better than 10.0: 1
Number of HSP's gapped: 737
Number of HSP's successfully gapped: 33
Length of query: 185
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 94
Effective length of database: 6,901,388
Effective search space: 648730472
Effective search space used: 648730472
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (25.5 bits)