RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1624
(346 letters)
>gnl|CDD|238532 cd01099, PAN_AP_HGF, Subfamily of PAN/APPLE-like domains; present
in N-terminal (N) domains of plasminogen/hepatocyte
growth factor proteins, and various proteins found in
Bilateria, such as leech anti-platelet proteins.
PAN/APPLE domains fulfill diverse biological functions
by mediating protein-protein or protein-carbohydrate
interactions.
Length = 80
Score = 74.4 bits (183), Expect = 6e-17
Identities = 30/77 (38%), Positives = 42/77 (54%), Gaps = 1/77 (1%)
Query: 257 DTAFQRYRNSKLGGEFHSEITGRSLSECLDECLRQASFQCRSAVYSERFRICRLSRFNQR 316
D F N L E +EIT SL ECL +CL + F CRS Y+ + + C LS ++
Sbjct: 3 DFKFVLVLNKILVSEVKTEITVASLEECLRKCLEETEFTCRSFNYNYKSKECILSDEDRM 62
Query: 317 DGH-RIVYDPDYDYYEN 332
+++YD + DYYEN
Sbjct: 63 SSGVKLLYDSNVDYYEN 79
Score = 59.8 bits (145), Expect = 9e-12
Identities = 28/82 (34%), Positives = 35/82 (42%), Gaps = 2/82 (2%)
Query: 97 NRHYVFERHARKKLKLPAADVKEIMASNRTDCEDKCLNEFTFVCRSASYDSVAKTCSLSR 156
+ F K L EI ++ +C KCL E F CRS +Y+ +K C LS
Sbjct: 1 LNDFKFVLVLNKILVS--EVKTEITVASLEECLRKCLEETEFTCRSFNYNYKSKECILSD 58
Query: 157 FTRRSHPEMLEDDPNADYLENT 178
R S L D N DY EN
Sbjct: 59 EDRMSSGVKLLYDSNVDYYENK 80
Score = 27.0 bits (60), Expect = 3.8
Identities = 12/39 (30%), Positives = 14/39 (35%), Gaps = 1/39 (2%)
Query: 189 PVIFVKEENKRLGGPFEVDIYANLSLLECQAQCLGAEKF 227
FV NK L SL EC +CL +F
Sbjct: 3 DFKFVLVLNKILVS-EVKTEITVASLEECLRKCLEETEF 40
>gnl|CDD|214680 smart00473, PAN_AP, divergent subfamily of APPLE domains.
Apple-like domains present in Plasminogen, C. elegans
hypothetical ORFs and the extracellular portion of plant
receptor-like protein kinases. Predicted to possess
protein- and/or carbohydrate-binding functions.
Length = 78
Score = 55.7 bits (134), Expect = 3e-10
Identities = 24/77 (31%), Positives = 34/77 (44%), Gaps = 1/77 (1%)
Query: 257 DTAFQRYRNSKLGGEFHSEITGRSLSECLDECLRQASFQCRSAVYSERFRICRLSRFNQR 316
D F R N+KL G I+ SL EC +CL ++ CRS Y+ + C L +
Sbjct: 3 DDCFVRLPNTKLPGFSRIVISVASLEECASKCL-NSNCSCRSFTYNNGTKGCLLWSESSL 61
Query: 317 DGHRIVYDPDYDYYENL 333
R+ D YE +
Sbjct: 62 GDARLFPSGGVDLYEKI 78
Score = 45.3 bits (107), Expect = 1e-06
Identities = 20/77 (25%), Positives = 28/77 (36%), Gaps = 4/77 (5%)
Query: 102 FERHARKKLKLPAADVKEIMASNRTDCEDKCLNEFTFVCRSASYDSVAKTCSLSRFTRRS 161
F R KL P I ++ +C KCLN CRS +Y++ K C L +
Sbjct: 6 FVRLPNTKL--PGFSRIVISVASLEECASKCLNS-NCSCRSFTYNNGTKGCLLWSESSLG 62
Query: 162 HPEMLEDDPNADYLENT 178
+ D E
Sbjct: 63 DARLFPSG-GVDLYEKI 78
>gnl|CDD|215662 pfam00024, PAN_1, PAN domain. The PAN domain contains a conserved
core of three disulphide bridges. In some members of the
family there is an additional fourth disulphide bridge
the links the N and C termini of the domain. The domain
is found in diverse proteins, in some they mediate
protein-protein interactions, in others they mediate
protein-carbohydrate interactions.
Length = 78
Score = 53.0 bits (127), Expect = 2e-09
Identities = 25/79 (31%), Positives = 34/79 (43%), Gaps = 4/79 (5%)
Query: 102 FERHARKKLKLPAADVKEIMASNRTDCEDKCLNEFTFVCRSASYDSVAKTCSLSRFTRRS 161
FER L DV + + +C C NE VCRS +Y+ +K C L + S
Sbjct: 3 FERVPGTSLS--GTDVSVVDVPSAEECAALCTNE-PRVCRSFTYNPKSKECLLKSSSSGS 59
Query: 162 -HPEMLEDDPNADYLENTC 179
P + D DY E +C
Sbjct: 60 LPPRLKRSDQGVDYYEKSC 78
Score = 47.2 bits (112), Expect = 3e-07
Identities = 20/76 (26%), Positives = 28/76 (36%), Gaps = 3/76 (3%)
Query: 259 AFQRYRNSKLGGEFHSEITGRSLSECLDECLRQASFQCRSAVYSERFRICRLSRFNQRDG 318
+F+R + L G S + S EC C CRS Y+ + + C L +
Sbjct: 2 SFERVPGTSLSGTDVSVVDVPSAEECAALC-TNEPRVCRSFTYNPKSKECLLKSSSSGSL 60
Query: 319 HR--IVYDPDYDYYEN 332
D DYYE
Sbjct: 61 PPRLKRSDQGVDYYEK 76
>gnl|CDD|225425 COG2870, RfaE, ADP-heptose synthase, bifunctional sugar
kinase/adenylyltransferase [Cell envelope biogenesis,
outer membrane].
Length = 467
Score = 34.2 bits (79), Expect = 0.095
Identities = 25/83 (30%), Positives = 34/83 (40%), Gaps = 8/83 (9%)
Query: 189 PVIFVKEENKRLGGPFEVDIYANLSLLECQAQCLGAEKFKGTDLY-LTKGNDFPENSVTS 247
PV+ V++E +RLGG V N++ L A +G G D N + S
Sbjct: 39 PVVKVEKEEERLGGAANV--AKNIASLGANAYLVG---VVGKDEAGKALIELLKANGIDS 93
Query: 248 HLFADGRRPDTAFQRY--RNSKL 268
L D RP R RN +L
Sbjct: 94 DLLRDKNRPTIVKLRVLSRNQQL 116
>gnl|CDD|238577 cd01172, RfaE_like, RfaE encodes a bifunctional ADP-heptose
synthase involved in the biosynthesis of the
lipopolysaccharide (LPS) core precursor
ADP-L-glycero-D-manno-heptose. LPS plays an important
role in maintaining the structural integrity of the
bacterial outer membrane of gram-negative bacteria. RfaE
consists of two domains, a sugar kinase domain,
represented here, and a domain belonging to the
cytidylyltransferase superfamily.
Length = 304
Score = 31.8 bits (73), Expect = 0.51
Identities = 25/86 (29%), Positives = 34/86 (39%), Gaps = 14/86 (16%)
Query: 189 PVIFVKEENKRLGGPFEVDIYANLSLLECQAQCLGAEKFKGTDLYLTKGNDF----PENS 244
PV+ V+ E RLGG V NL+ L + LG G D G+ +
Sbjct: 28 PVVKVEREEIRLGGAANV--ANNLASLGAKVTLLG---VVGDDEA---GDLLRKLLEKEG 79
Query: 245 VTSHLFADGRRPDTAFQRY--RNSKL 268
+ + D RP T R RN +L
Sbjct: 80 IDTDGIVDEGRPTTTKTRVIARNQQL 105
>gnl|CDD|238533 cd01100, APPLE_Factor_XI_like, Subfamily of PAN/APPLE-like domains;
present in plasma prekallikrein/coagulation factor XI,
microneme antigen proteins, and a few prokaryotic
proteins. PAN/APPLE domains fulfill diverse biological
functions by mediating protein-protein or
protein-carbohydrate interactions.
Length = 73
Score = 29.3 bits (66), Expect = 0.53
Identities = 10/43 (23%), Positives = 20/43 (46%), Gaps = 2/43 (4%)
Query: 112 LPAADVKEIMASNRTDCEDKCLNEFTFVCRSASYDSVAKTCSL 154
D+ + AS+ C+ C + C + +Y++ +K C L
Sbjct: 14 FRGGDLSTVFASSAEQCQAACTADPG--CLAFTYNTKSKKCFL 54
>gnl|CDD|233776 TIGR02198, rfaE_dom_I, rfaE bifunctional protein, domain I. RfaE
is a protein involved in the biosynthesis of
ADP-L-glycero-D-manno-heptose, a precursor for LPS inner
core biosynthesis. RfaE is a bifunctional protein in E.
coli, and separate proteins in some other genome. The
longer, N-terminal domain I (this family) is suggested
to act in D-glycero-D-manno-heptose 1-phosphate
biosynthesis, while domain II (TIGR02199) adds ADP to
yield ADP-D-glycero-D-manno-heptose [Cell envelope,
Biosynthesis and degradation of surface polysaccharides
and lipopolysaccharides].
Length = 315
Score = 31.0 bits (71), Expect = 0.81
Identities = 23/74 (31%), Positives = 30/74 (40%), Gaps = 11/74 (14%)
Query: 189 PVIFVKEENKRLGGPFEVDIYANLSLLECQAQCLGAEKFKGTD---LYLTKGNDFPENSV 245
PV+ V+ E RLGG V N++ L + +G G D L E +
Sbjct: 36 PVVKVEREEDRLGGAANV--ARNIASLGARVFLVG---VVGDDEAGKRLEAL--LAEEGI 88
Query: 246 -TSHLFADGRRPDT 258
TS L D RP T
Sbjct: 89 DTSGLIRDKDRPTT 102
>gnl|CDD|198100 smart01032, BHD_3, Rad4 beta-hairpin domain 3. This short domain
is found in the Rad4 protein. This domain binds to DNA.
Length = 75
Score = 27.5 bits (62), Expect = 2.5
Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 3/33 (9%)
Query: 26 INLVRTCTSFDFQPGSRIASFSGAV---EYEES 55
I+ T FDF+ GS G V E+ E+
Sbjct: 38 IDYAPAVTGFDFKRGSAHPVIDGVVVAEEFAEA 70
>gnl|CDD|184226 PRK13669, PRK13669, hypothetical protein; Provisional.
Length = 78
Score = 27.2 bits (61), Expect = 2.8
Identities = 12/23 (52%), Positives = 12/23 (52%)
Query: 164 EMLEDDPNADYLENTCLNSERRC 186
E LE DPN D LE CL C
Sbjct: 21 EKLEKDPNLDVLEYGCLGYCGIC 43
>gnl|CDD|148731 pfam07293, DUF1450, Protein of unknown function (DUF1450). This
family consists of several hypothetical bacterial
proteins of around 80 residues in length. Members of
this family contain four highly conserved cysteine
residues. The function of this family is unknown.
Length = 78
Score = 27.3 bits (61), Expect = 3.1
Identities = 12/23 (52%), Positives = 13/23 (56%)
Query: 164 EMLEDDPNADYLENTCLNSERRC 186
E LE DPN D LE CL+ C
Sbjct: 21 EKLEKDPNLDVLEYGCLSYCGIC 43
>gnl|CDD|233504 TIGR01644, phage_P2_V, phage baseplate assembly protein V. This
model describes a family of phage (and bacteriocin)
proteins related to the phage P2 V gene product, which
forms the small spike at the tip of the tail. Homologs
in general are annotated as baseplate assembly protein
V. At least one member is encoded within a region of
Pectobacterium carotovorum (Erwinia carotovora)
described as a bacteriocin, a phage tail-derived module
able to kill bacteria closely related to the host strain
[Mobile and extrachromosomal element functions, Prophage
functions].
Length = 190
Score = 28.9 bits (65), Expect = 3.1
Identities = 14/34 (41%), Positives = 15/34 (44%), Gaps = 8/34 (23%)
Query: 299 AVYSERFRICRLS------RFNQRDGHRIVYDPD 326
VYS+ FR LS F DG RI YD
Sbjct: 75 GVYSDDFRPPSLSAGDTVTYF--ADGARIEYDKA 106
>gnl|CDD|238531 cd01098, PAN_AP_plant, Plant PAN/APPLE-like domain; present in
plant S-receptor protein kinases and secreted
glycoproteins. PAN/APPLE domains fulfill diverse
biological functions by mediating protein-protein or
protein-carbohydrate interactions. S-receptor protein
kinases and S-locus glycoproteins are involved in
sporophytic self-incompatibility response in Brassica,
one of probably many molecular mechanisms, by which
hermaphrodite flowering plants avoid self-fertilization.
Length = 84
Score = 26.6 bits (59), Expect = 5.4
Identities = 13/62 (20%), Positives = 24/62 (38%), Gaps = 3/62 (4%)
Query: 93 RECPNRHYVFERHARKKLKLPAADVKEIMASNRTDCEDKCLNEFTFVCRSASYDSVAKTC 152
C +KLP I A + +C + CL+ + C + +Y++ + C
Sbjct: 3 LNCGGDGSTDGFLKLPDVKLPDNAS-AITAISLEECREACLSNCS--CTAYAYNNGSGGC 59
Query: 153 SL 154
L
Sbjct: 60 LL 61
>gnl|CDD|222053 pfam13337, Lon_2, Putative ATP-dependent Lon protease. This is a
family of proteins that are annotated as ATP-dependent
Lon proteases.
Length = 457
Score = 28.4 bits (64), Expect = 5.8
Identities = 14/37 (37%), Positives = 18/37 (48%), Gaps = 6/37 (16%)
Query: 281 LSECLDECLRQASFQCRSAVYSERFRICRLSRFNQRD 317
L+E L E LR+ SF S V FR+ + RD
Sbjct: 368 LAEALHE-LRKRSF---SDVVDRYFRLG--GNLSGRD 398
>gnl|CDD|237568 PRK13943, PRK13943, protein-L-isoaspartate O-methyltransferase;
Provisional.
Length = 322
Score = 27.9 bits (62), Expect = 8.4
Identities = 11/38 (28%), Positives = 17/38 (44%), Gaps = 3/38 (7%)
Query: 41 SRIASFSG---AVEYEESTCYLTRETAHPEGIGNLVLV 75
SR+ G +VEY C + + GI N++ V
Sbjct: 99 SRVVGEKGLVVSVEYSRKICEIAKRNVRRLGIENVIFV 136
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 0.418
Gapped
Lambda K H
0.267 0.0804 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,305,964
Number of extensions: 1591178
Number of successful extensions: 1138
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1132
Number of HSP's successfully gapped: 23
Length of query: 346
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 248
Effective length of database: 6,590,910
Effective search space: 1634545680
Effective search space used: 1634545680
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 (26.4 bits)