RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11008
(96 letters)
>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain. This is a family of proteins of
approximately 300 residues, found in plants and
vertebrates. They contain a highly conserved DDRGK
motif.
Length = 189
Score = 84.4 bits (209), Expect = 6e-22
Identities = 44/86 (51%), Positives = 60/86 (69%), Gaps = 15/86 (17%)
Query: 2 EDLAALFRMKTQSVIDRIVELQKTGALTGVIDDRGKFIYISQEELNSVATFIKQRGREEL 61
E+L+A F +KT+ VI+RI +L+ G++TGVIDDRGK+IYIS EEL +VA+FI +R
Sbjct: 118 EELSAEFGLKTEDVIERIQDLEAQGSITGVIDDRGKYIYISPEELEAVASFINKR----- 172
Query: 62 NSVATFIKQKGRVSVSELVENSNQLV 87
GRVS+SEL E SN+L+
Sbjct: 173 ----------GRVSISELAEISNKLI 188
>gnl|CDD|177503 PHA02996, PHA02996, poly(A) polymerase large subunit; Provisional.
Length = 467
Score = 29.2 bits (66), Expect = 0.26
Identities = 25/78 (32%), Positives = 40/78 (51%), Gaps = 12/78 (15%)
Query: 19 IVELQK------TGALTGVIDDRGKFIYISQEELNSVATFIKQRGREELNS--VATFI-K 69
I+ELQ T L GV+ + ++ S + + +++ R+ LNS VA K
Sbjct: 85 IIELQSVLVTTYTDVL-GVLTTKAPDVFSSNIRYD--YSSMEKLARDALNSYNVAVISEK 141
Query: 70 QKGRVSVSELVENSNQLV 87
GR +VS+LV N N+L+
Sbjct: 142 VMGRHNVSDLVGNVNKLM 159
>gnl|CDD|215590 PLN03123, PLN03123, poly [ADP-ribose] polymerase; Provisional.
Length = 981
Score = 27.4 bits (61), Expect = 1.1
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 55 QRGREELNSVATFIK---QKGRVSVSELVENSNQLVTLIP 91
Q+G E L + +K Q + S LV+ SN+ TLIP
Sbjct: 676 QKGFEALTEIQNLLKENDQDPSIRESLLVDASNRFFTLIP 715
>gnl|CDD|217900 pfam04109, APG9, Autophagy protein Apg9. In yeast, 15 Apg
proteins coordinate the formation of autophagosomes.
Autophagy is a bulk degradation process induced by
starvation in eukaryotic cells. Apg9 plays a direct
role in the formation of the cytoplasm to vacuole
targeting and autophagic vesicles, possibly serving as
a marker for a specialised compartment essential for
these vesicle-mediated alternative targeting pathways.
Length = 365
Score = 27.2 bits (61), Expect = 1.4
Identities = 10/17 (58%), Positives = 14/17 (82%)
Query: 13 QSVIDRIVELQKTGALT 29
Q V++RI+ELQ + ALT
Sbjct: 10 QEVVERIMELQDSNALT 26
>gnl|CDD|149648 pfam08662, eIF2A, Eukaryotic translation initiation factor eIF2A.
This is a family of eukaryotic translation initiation
factors.
Length = 194
Score = 26.5 bits (59), Expect = 1.8
Identities = 14/67 (20%), Positives = 25/67 (37%), Gaps = 5/67 (7%)
Query: 6 ALFRMKTQSVIDRIVELQKTGALTGVI-DDRGKFIYISQEELNSVATFIKQRGREELNSV 64
L+ + D +VEL K G + GK + + + TF +G N +
Sbjct: 40 NLYLIGETGGPDEVVELDKEGPIHDFAWSPNGKEFAVIYGYMPAKITFFDLKG----NVI 95
Query: 65 ATFIKQK 71
+ +Q
Sbjct: 96 HSLGEQP 102
>gnl|CDD|227291 COG4955, COG4955, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 343
Score = 25.2 bits (55), Expect = 5.8
Identities = 18/61 (29%), Positives = 31/61 (50%), Gaps = 6/61 (9%)
Query: 1 MEDLAALFRMKTQSVIDRIVELQKTGALTGVIDDRGKFIYISQEELNSVATFIKQRGREE 60
+ED+AA+ ++KT ++ D VE+ G DD Y+ E+ + F +Q E+
Sbjct: 259 LEDIAAIRQLKTSTIEDHFVEILLHGYAF-NYDD-----YVPLEDQLQIIQFAQQHRTEK 312
Query: 61 L 61
L
Sbjct: 313 L 313
>gnl|CDD|118392 pfam09862, DUF2089, Protein of unknown function (DUF2089). This
domain, found in various hypothetical prokaryotic
proteins, has no known function. This domain is a
zinc-ribbon.
Length = 113
Score = 24.9 bits (55), Expect = 6.0
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 36 GKFIYISQEELNSVATFIKQRG 57
KF ++ E+L V FIK RG
Sbjct: 29 CKFCRLTPEQLEFVELFIKCRG 50
>gnl|CDD|223295 COG0217, COG0217, Uncharacterized conserved protein [Function
unknown].
Length = 241
Score = 25.2 bits (56), Expect = 6.3
Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 4/61 (6%)
Query: 31 VIDDRGKF-IYISQEELNSVATFIKQRGREELNSVATFIKQKGRVSVSELVENSNQLVTL 89
V +D G +Y E+ N V ++ G E ++ T I Q +V E++ +L L
Sbjct: 164 VEEDEGSIEVYTEPEDFNKVKEALEAAGYEIESAELTMIPQ---NTVELDDEDAEKLEKL 220
Query: 90 I 90
I
Sbjct: 221 I 221
>gnl|CDD|216479 pfam01399, PCI, PCI domain. This domain has also been called the
PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15).
Length = 100
Score = 24.5 bits (54), Expect = 6.3
Identities = 10/41 (24%), Positives = 17/41 (41%)
Query: 1 MEDLAALFRMKTQSVIDRIVELQKTGALTGVIDDRGKFIYI 41
+ DLA L + V + +L + G + G ID +
Sbjct: 60 LSDLAKLLGLSVDEVEKILSKLIRDGRIRGKIDQVNGIVVF 100
>gnl|CDD|220089 pfam09012, FeoC, FeoC like transcriptional regulator. This
family contains several transcriptional regulators,
including FeoC, which contain a HTH motif. FeoC acts as
a [Fe-S] dependant transcriptional repressor.
Length = 68
Score = 24.1 bits (53), Expect = 6.8
Identities = 6/19 (31%), Positives = 14/19 (73%)
Query: 61 LNSVATFIKQKGRVSVSEL 79
L + +++++GR S++EL
Sbjct: 2 LTELKQYLQERGRASLAEL 20
>gnl|CDD|233340 TIGR01279, DPOR_bchN, light-independent protochlorophyllide
reductase, N subunit. This enzyme describes the N
subunit of the dark form protochlorophyllide reductase,
a nitrogenase-like enzyme involved in
bacteriochlorophyll biosynthesis. This subunit shows
homology to the nitrogenase molybdenum-iron protein NifN
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Chlorophyll and bacteriochlorphyll].
Length = 407
Score = 24.7 bits (54), Expect = 8.2
Identities = 26/100 (26%), Positives = 43/100 (43%), Gaps = 17/100 (17%)
Query: 1 MEDLAALFRMKTQSVIDRIVELQKTGALTGVIDD-RGKFIYI---SQEELNSVATFIKQR 56
+E +AA F ++ + +R E Q AL RGK I+ + EL +A F+K+
Sbjct: 240 LEAIAAEFGIEVDKLSER--EAQAWRALEPHTQLLRGKKIFFFGDNLLEL-PLARFLKRC 296
Query: 57 GREELNSVATFIKQK----------GRVSVSELVENSNQL 86
G E + +I ++ G V + E + QL
Sbjct: 297 GMEVVECGTPYIHRRFHAAELALLEGGVRIVEQPDFHRQL 336
>gnl|CDD|190460 pfam02877, PARP_reg, Poly(ADP-ribose) polymerase, regulatory
domain. Poly(ADP-ribose) polymerase catalyzes the
covalent attachment of ADP-ribose units from NAD+ to
itself and to a limited number of other DNA binding
proteins, which decreases their affinity for DNA.
Poly(ADP-ribose) polymerase is a regulatory component
induced by DNA damage. The carboxyl-terminal region is
the most highly conserved region of the protein.
Experiments have shown that a carboxyl 40 kDa fragment
is still catalytically active.
Length = 130
Score = 24.4 bits (54), Expect = 8.7
Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 2/37 (5%)
Query: 55 QRGREELNSVATFIKQKGRVSVSELVENSNQLVTLIP 91
Q+G E L + +K+ S S L + SN+ TLIP
Sbjct: 43 QKGYEVLKEIQELLKKGK--SGSALEDLSNRFYTLIP 77
>gnl|CDD|225941 COG3407, MVD1, Mevalonate pyrophosphate decarboxylase [Lipid
metabolism].
Length = 329
Score = 24.6 bits (54), Expect = 9.2
Identities = 11/56 (19%), Positives = 23/56 (41%), Gaps = 2/56 (3%)
Query: 7 LFRMKTQSVIDRIVELQKTGALTGVIDDRGKFIYI-SQEE-LNSVATFIKQRGREE 60
++ +I+ + EL+K G D G + + + EE L + +K +
Sbjct: 256 YLTDESLRIIEFVHELRKEGNAVYFTMDAGPNVKVITLEENLIDLLEILKTLECID 311
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
0.316 0.132 0.338
Gapped
Lambda K H
0.267 0.0765 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,735,971
Number of extensions: 397493
Number of successful extensions: 414
Number of sequences better than 10.0: 1
Number of HSP's gapped: 413
Number of HSP's successfully gapped: 30
Length of query: 96
Length of database: 10,937,602
Length adjustment: 63
Effective length of query: 33
Effective length of database: 8,143,300
Effective search space: 268728900
Effective search space used: 268728900
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.1 bits)