RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4205
(315 letters)
>gnl|CDD|216143 pfam00835, SNAP-25, SNAP-25 family. SNAP-25
(synaptosome-associated protein 25 kDa) proteins are
components of SNARE complexes. Members of this family
contain a cluster of cysteine residues that can be
palmitoylated for membrane attachment.
Length = 57
Score = 64.1 bits (156), Expect = 1e-13
Identities = 31/57 (54%), Positives = 38/57 (66%), Gaps = 5/57 (8%)
Query: 47 PCNKSASFK---EDEGTWKGNDDGKVVNNQP-QRVMDDRNGL-GPQAGYIGKITNDA 98
P NK +FK + + WK NDDGKVV++QP RV DDR + GP GYI +ITNDA
Sbjct: 1 PWNKIKNFKSGTDKKKAWKNNDDGKVVSSQPRSRVEDDREPMSGPSGGYITRITNDA 57
Score = 57.6 bits (139), Expect = 3e-11
Identities = 27/50 (54%), Positives = 33/50 (66%), Gaps = 2/50 (4%)
Query: 197 SASFKEDEGTWKGNDDGKVVNNQP-QRVMDDRNGL-GPQAGYIGKITNDA 244
S + + WK NDDGKVV++QP RV DDR + GP GYI +ITNDA
Sbjct: 8 FKSGTDKKKAWKNNDDGKVVSSQPRSRVEDDREPMSGPSGGYITRITNDA 57
Score = 41.4 bits (97), Expect = 2e-05
Identities = 18/40 (45%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 139 NRKVKSASFKEDEGTWKGNDDGKVVNNQP-QRVMDDRNEV 177
N+ S + + WK NDDGKVV++QP RV DDR +
Sbjct: 3 NKIKNFKSGTDKKKAWKNNDDGKVVSSQPRSRVEDDREPM 42
>gnl|CDD|203323 pfam05739, SNARE, SNARE domain. Most if not all vesicular membrane
fusion events in eukaryotic cells are believed to be
mediated by a conserved fusion machinery, the SNARE
[soluble N-ethylmaleimide-sensitive factor (NSF)
attachment protein (SNAP) receptors] machinery. The
SNARE domain is thought to act as a protein-protein
interaction module in the assembly of a SNARE protein
complex.
Length = 62
Score = 52.1 bits (126), Expect = 3e-09
Identities = 14/51 (27%), Positives = 28/51 (54%)
Query: 103 MEENMGQVNTMIGNLRNMAIDMGSELENQNRQIDRINRKVKSASFKEDEGT 153
+E + ++ + IG L+ + +DMG E+E Q +DRI+ V + + +
Sbjct: 1 RDEALEELESSIGELKQLFLDMGEEVEEQGELLDRIDDNVDNTQSRVERAN 51
Score = 50.2 bits (121), Expect = 1e-08
Identities = 14/40 (35%), Positives = 25/40 (62%)
Query: 249 MEENMGQVNTMIGNLRNMAIDMGSELENQNRQIDRINRKV 288
+E + ++ + IG L+ + +DMG E+E Q +DRI+ V
Sbjct: 1 RDEALEELESSIGELKQLFLDMGEEVEEQGELLDRIDDNV 40
Score = 26.7 bits (60), Expect = 2.8
Identities = 10/33 (30%), Positives = 18/33 (54%)
Query: 7 EGQEKQLDRIEEGMDQINADMKEAEKNLTGMEK 39
E Q + LDRI++ +D + ++ A K L +
Sbjct: 27 EEQGELLDRIDDNVDNTQSRVERANKRLKKAAR 59
>gnl|CDD|238115 cd00193, t_SNARE, Soluble NSF (N-ethylmaleimide-sensitive fusion
protein)-Attachment protein (SNAP) REceptor domain;
these alpha-helical motifs form twisted and parallel
heterotetrameric helix bundles; the core complex
contains one helix from a protein that is anchored in
the vesicle membrane (synaptobrevin), one helix from a
protein of the target membrane (syntaxin), and two
helices from another protein anchored in the target
membrane (SNAP-25); their interaction forms a core which
is composed of a polar zero layer, a flanking
leucine-zipper layer acts as a water tight shield to
isolate ionic interactions in the zero layer from the
surrounding solvent.
Length = 60
Score = 51.0 bits (123), Expect = 8e-09
Identities = 17/49 (34%), Positives = 28/49 (57%)
Query: 100 ENEMEENMGQVNTMIGNLRNMAIDMGSELENQNRQIDRINRKVKSASFK 148
E E +E + Q+ IG L+ + +D+G+E+E Q +DRI V +A
Sbjct: 1 EQERDEELEQLEASIGELKQIFLDLGTEVEEQGELLDRIEDNVDNADVN 49
Score = 50.2 bits (121), Expect = 1e-08
Identities = 16/43 (37%), Positives = 26/43 (60%)
Query: 246 ENEMEENMGQVNTMIGNLRNMAIDMGSELENQNRQIDRINRKV 288
E E +E + Q+ IG L+ + +D+G+E+E Q +DRI V
Sbjct: 1 EQERDEELEQLEASIGELKQIFLDLGTEVEEQGELLDRIEDNV 43
Score = 28.6 bits (65), Expect = 0.72
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 7 EGQEKQLDRIEEGMDQINADMKEAEKNLTGM 37
E Q + LDRIE+ +D + ++K A K L
Sbjct: 30 EEQGELLDRIEDNVDNADVNVKRANKRLKKA 60
>gnl|CDD|197699 smart00397, t_SNARE, Helical region found in SNAREs. All
alpha-helical motifs that form twisted and parallel
four-helix bundles in target soluble
N-ethylmaleimide-sensitive factor (NSF) attachment
protein (SNAP) receptor proteins. This motif found in
"Q-SNAREs".
Length = 66
Score = 51.0 bits (123), Expect = 9e-09
Identities = 21/55 (38%), Positives = 29/55 (52%)
Query: 94 ITNDARENEMEENMGQVNTMIGNLRNMAIDMGSELENQNRQIDRINRKVKSASFK 148
ARE E +E + Q+ I L+ + +DMG+ELE Q Q+DRI V A
Sbjct: 1 QQALAREEERDEELEQLEKSIQELKQIFLDMGTELEEQGEQLDRIEDNVDDADVN 55
Score = 50.7 bits (122), Expect = 1e-08
Identities = 20/49 (40%), Positives = 28/49 (57%)
Query: 240 ITNDARENEMEENMGQVNTMIGNLRNMAIDMGSELENQNRQIDRINRKV 288
ARE E +E + Q+ I L+ + +DMG+ELE Q Q+DRI V
Sbjct: 1 QQALAREEERDEELEQLEKSIQELKQIFLDMGTELEEQGEQLDRIEDNV 49
Score = 29.5 bits (67), Expect = 0.38
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 7 EGQEKQLDRIEEGMDQINADMKEAEKNLTGM 37
E Q +QLDRIE+ +D + ++K+A K L
Sbjct: 36 EEQGEQLDRIEDNVDDADVNLKKANKRLKKA 66
>gnl|CDD|222679 pfam14322, SusD-like_3, Starch-binding associating with outer
membrane. SusD is a secreted starch-binding protein
with an N-terminal lipid tail that allows it to
associate with the outer membrane.
Length = 190
Score = 29.3 bits (66), Expect = 2.3
Identities = 11/28 (39%), Positives = 16/28 (57%), Gaps = 2/28 (7%)
Query: 10 EKQLDR--IEEGMDQINADMKEAEKNLT 35
E+ L R ++E DQI D++EA L
Sbjct: 137 EQNLPRATVQEVYDQIIKDLEEAIPLLP 164
>gnl|CDD|221833 pfam12889, DUF3829, Protein of unknown function (DUF3829). This is
a small family of proteins from several bacterial
species, whose function is not known. It may, however,
be related to the GvpL_GvpF family of proteins,
pfam06386.
Length = 277
Score = 29.3 bits (66), Expect = 2.5
Identities = 12/83 (14%), Positives = 35/83 (42%), Gaps = 3/83 (3%)
Query: 103 MEENMGQVNTMIGNLRNMAIDMGSELENQ--NRQIDRINRKVKSASFK-EDEGTWKGNDD 159
++ + ++ + +L+ + + G E + D KS + D+ + +
Sbjct: 192 LDAALAELEKALEDLKKLTKEDGDEEKASSFMSSADEFKSSAKSFIGRVRDKKPYSKSGS 251
Query: 160 GKVVNNQPQRVMDDRNEVVTYYN 182
G P+ +++ N++++ YN
Sbjct: 252 GDPTAGSPEDLLEAYNDLISDYN 274
>gnl|CDD|237258 PRK12903, secA, preprotein translocase subunit SecA; Reviewed.
Length = 925
Score = 28.1 bits (63), Expect = 8.6
Identities = 21/111 (18%), Positives = 37/111 (33%), Gaps = 2/111 (1%)
Query: 68 KVVNNQPQRVMDDRNGLGPQAGYIGKITNDARENEMEENMGQVNTMIGNLRNMAIDMGSE 127
+N++PQ ++D + +I + EE +N NL+ SE
Sbjct: 798 SDINDRPQELIDQIIESEEERLKALRIQREEMLMRPEEL-ELINEEQKNLKQEIKLELSE 856
Query: 128 LENQNRQIDRINRKVKSA-SFKEDEGTWKGNDDGKVVNNQPQRVMDDRNEV 177
++ +I IN FK D K V + D+ +
Sbjct: 857 IQEAEEEIQNINENKNEFVEFKNDPKKLNKLIIAKDVLIKLVISSDEIKQD 907
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
0.314 0.133 0.385
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,612,582
Number of extensions: 1467574
Number of successful extensions: 1118
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1115
Number of HSP's successfully gapped: 38
Length of query: 315
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 218
Effective length of database: 6,635,264
Effective search space: 1446487552
Effective search space used: 1446487552
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 59 (26.4 bits)