RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy353
(1363 letters)
>gnl|CDD|216929 pfam02207, zf-UBR, Putative zinc finger in N-recognin (UBR box).
This region is found in E3 ubiquitin ligases that
recognise N-recognins.
Length = 71
Score = 104 bits (261), Expect = 7e-27
Identities = 39/70 (55%), Positives = 46/70 (65%)
Query: 117 SVCGRVFKMGEPTYNCRECGMDATCVLCVDCFKKSTHRNHKYKMGTSNAGGCCDCGDVEA 176
SVCG VFK G+P Y C C +D TCV+C +CF S H+ H S GGCCDCGD EA
Sbjct: 1 SVCGYVFKSGQPVYRCLTCSLDPTCVICYECFSISCHKGHDVVELFSKRGGCCDCGDPEA 60
Query: 177 WKKEPYCDVH 186
WKKE +C +H
Sbjct: 61 WKKEGFCKLH 70
>gnl|CDD|197698 smart00396, ZnF_UBR1, Putative zinc finger in N-recognin, a
recognition component of the N-end rule pathway. Domain
is involved in recognition of N-end rule substrates in
yeast Ubr1p.
Length = 71
Score = 97.9 bits (244), Expect = 1e-24
Identities = 35/71 (49%), Positives = 42/71 (59%)
Query: 117 SVCGRVFKMGEPTYNCRECGMDATCVLCVDCFKKSTHRNHKYKMGTSNAGGCCDCGDVEA 176
VCG F GE Y C+ CG+D TCVLC DCF+ S H+ H + TS G CDCGD EA
Sbjct: 1 DVCGYKFTGGEVIYRCKTCGLDPTCVLCSDCFRPSCHKGHDVSLKTSRGSGICDCGDKEA 60
Query: 177 WKKEPYCDVHI 187
W ++ C H
Sbjct: 61 WNEDLKCKAHE 71
>gnl|CDD|217146 pfam02617, ClpS, ATP-dependent Clp protease adaptor protein ClpS.
In the bacterial cytosol, ATP-dependent protein
degradation is performed by several different
chaperone-protease pairs, including ClpAP. ClpS directly
influences the ClpAP machine by binding to the
N-terminal domain of the chaperone ClpA. The degradation
of ClpAP substrates, both SsrA-tagged proteins and ClpA
itself, is specifically inhibited by ClpS. ClpS modifies
ClpA substrate specificity, potentially redirecting
degradation by ClpAP toward aggregated proteins.
Length = 78
Score = 64.8 bits (159), Expect = 7e-13
Identities = 15/57 (26%), Positives = 27/57 (47%)
Query: 299 DNFCTVLYNDEFHTFEQVINTLVRSLKCSQKDAIEFVTNIDREGRAAVKCSNFSHCE 355
+ +L ND++ T E V+ L + S++ A + + + +EGRA V E
Sbjct: 5 PMYKVILLNDDYTTMEFVVEVLQKVFGMSEEQATQIMLEVHKEGRAVVGVGTREIAE 61
>gnl|CDD|183845 PRK13019, clpS, ATP-dependent Clp protease adaptor; Reviewed.
Length = 94
Score = 30.7 bits (70), Expect = 1.2
Identities = 15/44 (34%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 304 VLYNDEFHTFEQVINTLVRSL-KCSQKDAIEFVTNIDREGRAAV 346
++ ND+F+TFE V+N L++++ S+ A + +EG A V
Sbjct: 25 IVLNDDFNTFEHVVNCLLKAIPGMSEDRAWRLMITAHKEGSAVV 68
>gnl|CDD|224182 COG1262, COG1262, Uncharacterized conserved protein [Function
unknown].
Length = 314
Score = 32.5 bits (74), Expect = 1.5
Identities = 11/55 (20%), Positives = 16/55 (29%), Gaps = 1/55 (1%)
Query: 164 NAGGCCD-CGDVEAWKKEPYCDVHIIGTQKRHESGSILPPDLAQRARLTFSSVLR 217
A G D G+V W + + H GS + V+R
Sbjct: 223 AAYGLYDMHGNVWEWTADWEKEWHYDNYGPAPSDGSAWYDGNSGSKFFGSLRVVR 277
>gnl|CDD|165420 PHA03149, PHA03149, hypothetical protein; Provisional.
Length = 66
Score = 29.6 bits (66), Expect = 1.7
Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 1052 PLEIN-RLINLPDDYSELINTVSLFTCPN 1079
PL+ ++INLPDD+ EL T + CP+
Sbjct: 14 PLDTEGKVINLPDDFEELSETEIMLACPH 42
>gnl|CDD|235202 PRK04023, PRK04023, DNA polymerase II large subunit; Validated.
Length = 1121
Score = 31.8 bits (73), Expect = 3.1
Identities = 14/64 (21%), Positives = 16/64 (25%), Gaps = 11/64 (17%)
Query: 130 YNCRECGMDATCVLCVDCFKKSTHRNHKYKMGTSNAGGCCDCGDVEAWKKEPYCDVHIIG 189
C CG + C C TH Y C CG + C
Sbjct: 627 RKCPSCGKETFYRRCPFC---GTHTEPVY--------RCPRCGIEVEEDECEKCGREPTP 675
Query: 190 TQKR 193
KR
Sbjct: 676 YSKR 679
>gnl|CDD|190601 pfam03323, GerA, Bacillus/Clostridium GerA spore germination
protein.
Length = 468
Score = 31.6 bits (73), Expect = 3.4
Identities = 23/90 (25%), Positives = 39/90 (43%), Gaps = 12/90 (13%)
Query: 851 IKKEIIQQLCIKPLPHSELNKALPDDSNHETGLERVI-----NEIADFKKPTQS--SGKG 903
+ K++I + +KPL + EL + + E L++++ E+ D + S SG
Sbjct: 36 VDKDLINEYILKPLMNEELEEEEEKEDILEEILKKILPISEVKEVDDLDEIIDSILSGNT 95
Query: 904 VYELKPEFYDGYNVFFYHYSREEVSRSEEE 933
V F DG + +R RS EE
Sbjct: 96 VL-----FIDGEDKALLIDTRGYPKRSIEE 120
>gnl|CDD|220706 pfam10345, Cohesin_load, Cohesin loading factor. Cohesin_load is a
common cohesin loading factor protein that is conserved
in fungi. It is associated with the cohesin complex and
is required in G1 for cohesin binding to chromosomes but
dispensable in G2 when cohesion has been established. It
is referred to as both Ssl3, in pombe, and Scc4, in
S.cerevisiae. It complexes with Mis4.
Length = 592
Score = 30.8 bits (70), Expect = 5.9
Identities = 23/114 (20%), Positives = 49/114 (42%), Gaps = 8/114 (7%)
Query: 447 FISGMLMEYESKKSFARVFTKKYGSIMKDFIKDDHDHSFSIGSMSVQIYTVPTLAHYLIA 506
F+SG+ Y+ ++ F K ++ K + + FS+ +S +I + ++ Y++
Sbjct: 300 FLSGLHNMYDKYTDKSQKFLPKALRQLEKLKKRNPESPFSLSELSEKIQWLSSIKCYVLF 359
Query: 507 HEDVLFILLSTFISECTRKLNKKKKLEFERNIPNASFKRAQYILYDL-RYLLGV 559
+ I+ F+ + EF R++ F++ L L YL G+
Sbjct: 360 Y-----IIWCAFVL--GDWAKATRLNEFLRSLNQKLFEKLLKDLQPLLHYLEGL 406
>gnl|CDD|152446 pfam12011, DUF3503, Domain of unknown function (DUF3503). This
presumed domain is functionally uncharacterized. This
domain is found in viruses. This domain is about 170
amino acids in length. This domain is found associated
with pfam00271.
Length = 170
Score = 29.6 bits (67), Expect = 7.2
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 915 YNVFFYHYSREEVSRSEEEQRKR 937
+VF Y YS++E + RKR
Sbjct: 15 VDVFPYKYSQKEFEEMNNKDRKR 37
>gnl|CDD|215060 PLN00112, PLN00112, malate dehydrogenase (NADP); Provisional.
Length = 444
Score = 30.6 bits (69), Expect = 7.3
Identities = 17/55 (30%), Positives = 22/55 (40%), Gaps = 12/55 (21%)
Query: 893 FKKPTQSSGKGVYELKPEFYDGYNVFFYHYSREEVSRSEEEQRKRRKAAKELECV 947
F P +S G G YE+ +V Y RE + +SE E E CV
Sbjct: 378 FSMPCRSKGDGDYEIVK------DVEIDDYLRERIKKSEAE------LLAEKRCV 420
>gnl|CDD|149729 pfam08759, DUF1792, Domain of unknown function (DUF1792). This
putative domain is probably missannotated as a glycosyl
transferase 8 family member. This domain is found at the
C-terminus of proteins that also contain the glycosyl
transferase domain at the N-terminus.
Length = 225
Score = 29.9 bits (68), Expect = 7.5
Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 5/46 (10%)
Query: 426 EGILVKDSQLWKAARLHWHRL----FISGMLMEYESKKSFARVFTK 467
+ ++ K L +R FIS ++Y+ K AR F K
Sbjct: 64 KTHFFRNGDFIKKL-LVPNRWYGSTFISRPYIDYKDKSKSARYFHK 108
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
0.321 0.137 0.421
Gapped
Lambda K H
0.267 0.0666 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 69,942,972
Number of extensions: 6978143
Number of successful extensions: 5712
Number of sequences better than 10.0: 1
Number of HSP's gapped: 5710
Number of HSP's successfully gapped: 22
Length of query: 1363
Length of database: 10,937,602
Length adjustment: 109
Effective length of query: 1254
Effective length of database: 6,103,016
Effective search space: 7653182064
Effective search space used: 7653182064
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: 65 (28.9 bits)