RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8405
(225 letters)
>gnl|CDD|201767 pfam01393, Chromo_shadow, Chromo shadow domain. This domain is
distantly related to pfam00385. This domain is always
found in association with a chromo domain.
Length = 57
Score = 49.7 bits (119), Expect = 1e-08
Identities = 23/56 (41%), Positives = 35/56 (62%), Gaps = 1/56 (1%)
Query: 157 RNLPVEEIIGATIEVGFPAYLVTWEGSDEADLLPAEICKRKYPQPLIRFFEQHLVF 212
R L +E+I+GAT G +L ++ DEADL+PA+ K PQ +I F+E+ L +
Sbjct: 1 RGLELEKIVGATDSPGELHFLCKFKD-DEADLVPAKEANVKCPQQVIAFYEERLTW 55
>gnl|CDD|197638 smart00300, ChSh, Chromo Shadow Domain.
Length = 61
Score = 46.2 bits (110), Expect = 2e-07
Identities = 25/61 (40%), Positives = 38/61 (62%), Gaps = 1/61 (1%)
Query: 154 GIDRNLPVEEIIGATIEVGFPAYLVTWEGSDEADLLPAEICKRKYPQPLIRFFEQHLVFP 213
G +R E+I+GAT + G +L+ W+ D A L+P++ K PQ +IRF+E+HL F
Sbjct: 2 GFERGKSWEDIVGATKDDGELTFLIKWKD-DAASLVPSKEANVKCPQMVIRFYEEHLTFQ 60
Query: 214 S 214
S
Sbjct: 61 S 61
>gnl|CDD|237998 cd00034, ChSh, Chromo Shadow Domain, found in association with
N-terminal chromo (CHRromatin Organization MOdifier)
domain; Chromo domains mediate the interaction of the
heterochromatin with other heterochromatin proteins,
thereby affecting chromatin structure (e.g. Drosophila
and human heterochromatin protein (HP1) and mammalian
modifier 1 and modifier 2).
Length = 54
Score = 41.2 bits (97), Expect = 1e-05
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 2/53 (3%)
Query: 161 VEEIIGATI-EVGFPAYLVTWEGSDEADLLPAEICKRKYPQPLIRFFEQHLVF 212
V+ I GA+ + G +L W+ +A L+P + K P +I F+E+HL +
Sbjct: 2 VKPISGASKSDDGELTFLAKWKD-GQASLVPNKELNVKCPLLVISFYEEHLTY 53
>gnl|CDD|178641 PLN03093, PLN03093, Protein SENSITIVITY TO RED LIGHT REDUCED 1;
Provisional.
Length = 273
Score = 31.4 bits (71), Expect = 0.34
Identities = 13/32 (40%), Positives = 19/32 (59%), Gaps = 2/32 (6%)
Query: 97 TSNHTPDG--TVVKKKRGRKRKYPLPTVEPEE 126
N + +G TVV +RG++R+ P P PEE
Sbjct: 5 VDNSSSNGEWTVVLPRRGKRRRKPKPKGTPEE 36
>gnl|CDD|234322 TIGR03709, PPK2_rel_1, polyphosphate:nucleotide phosphotransferase,
PPK2 family. Members of this protein family belong to
the polyphosphate kinase 2 (PPK2) family, which is not
related in sequence to PPK1. While PPK1 tends to act in
the biosynthesis of polyphosphate, or poly(P), members
of the PPK2 family tend to use the terminal phosphate of
poly(P) to regenerate ATP or GTP from the corresponding
nucleoside diphosphate, or ADP from AMP as is the case
with polyphosphate:AMP phosphotransferase (PAP). Members
of this protein family most likely transfer the terminal
phosphate between poly(P) and some nucleotide, but it is
not clear which [Central intermediary metabolism,
Phosphorus compounds].
Length = 264
Score = 29.5 bits (67), Expect = 1.1
Identities = 9/25 (36%), Positives = 14/25 (56%), Gaps = 2/25 (8%)
Query: 187 DLLPAEICKRKYPQPLIRFFEQHLV 211
L+P I +R+Y I FE++L
Sbjct: 134 GLIPKAIWERRYED--INDFERYLT 156
>gnl|CDD|187618 cd05360, SDR_c3, classical (c) SDR, subgroup 3. These proteins are
members of the classical SDR family, with a canonical
active site triad (and also active site Asn) and a
typical Gly-rich NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 233
Score = 29.3 bits (66), Expect = 1.5
Identities = 15/36 (41%), Positives = 21/36 (58%)
Query: 93 LIQPTSNHTPDGTVVKKKRGRKRKYPLPTVEPEEVA 128
L+QPT+ +TP + G+K K P P +PE VA
Sbjct: 178 LVQPTAMNTPFFGHARSYMGKKPKPPPPIYQPERVA 213
>gnl|CDD|178130 PLN02515, PLN02515, naringenin,2-oxoglutarate 3-dioxygenase.
Length = 358
Score = 27.3 bits (60), Expect = 6.9
Identities = 14/45 (31%), Positives = 23/45 (51%)
Query: 41 NNQGLKSGDHENIHNVNTSKIGIKTEENPTLDGGNIKIPKKRGRK 85
+N K+ DH+ + N N S++ I T +NP D + + G K
Sbjct: 266 SNGRFKNADHQAVVNSNCSRLSIATFQNPAPDATVYPLKVREGEK 310
>gnl|CDD|222926 PHA02745, PHA02745, hypothetical protein; Provisional.
Length = 265
Score = 26.8 bits (59), Expect = 8.6
Identities = 16/68 (23%), Positives = 26/68 (38%), Gaps = 2/68 (2%)
Query: 55 NVNTSKIGIKTEENPTLDGGNIKIPKKRGRKRKYPLANLIQPTSNHTPDGT--VVKKKRG 112
++ TS +EE ++ + RG K L + H T + K R
Sbjct: 62 DIRTSTGDYVSEEEHFGRVDTQEVDEFRGLNAKIRDKVLPIEDNKHDNSETRNPLNKIRQ 121
Query: 113 RKRKYPLP 120
+ RK+ LP
Sbjct: 122 QIRKFTLP 129
>gnl|CDD|163520 TIGR03808, RR_plus_rpt_1, twin-arg-translocated uncharacterized
repeat protein. Members of this protein family have a
Sec-independent twin-arginine tranlocation (TAT) signal
sequence, which enables tranfer of proteins folded
around prosthetic groups to cross the plasma membrane.
These proteins have four copies of a repeat of about 23
amino acids that resembles the beta-helix repeat.
Beta-helix refers to a structural motif in which
successive beta strands wind around to stack parallel in
a right-handed helix, as in AlgG and related enzymes of
carbohydrate metabolism. The twin-arginine motif
suggests that members of this protein family bind some
unknown cofactor.
Length = 455
Score = 27.1 bits (60), Expect = 9.9
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 70 TLDGGNIKIPKKRG 83
TLDGG I +P++RG
Sbjct: 123 TLDGGGIPLPQRRG 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
0.312 0.133 0.379
Gapped
Lambda K H
0.267 0.0699 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,489,273
Number of extensions: 1083704
Number of successful extensions: 660
Number of sequences better than 10.0: 1
Number of HSP's gapped: 660
Number of HSP's successfully gapped: 14
Length of query: 225
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 132
Effective length of database: 6,812,680
Effective search space: 899273760
Effective search space used: 899273760
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 (21.8 bits)
S2: 57 (25.8 bits)