RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14535
(155 letters)
>gnl|CDD|240297 PTZ00159, PTZ00159, 60S ribosomal protein L32; Provisional.
Length = 133
Score = 192 bits (490), Expect = 2e-64
Identities = 82/133 (61%), Positives = 105/133 (78%)
Query: 23 SIKPVYRPKIVKKRRKVFIRHQSDRYKKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGS 82
+KP + KIVKKR K F R QS+R+ ++ SWRKP+GIDNRVRRRFKG LMP IGYGS
Sbjct: 1 MVKPKVKKKIVKKRTKKFTRFQSERFPRVKPSWRKPRGIDNRVRRRFKGTRLMPKIGYGS 60
Query: 83 AKKTRHMLPNHFLKVVVHNVKELEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRL 142
KKTR++LP+ F K V NVK+LE+L+M NRKY AEI H VS++KR+ IV+RA++L++R+
Sbjct: 61 DKKTRYLLPSGFYKFPVRNVKDLEMLLMHNRKYAAEIAHNVSARKRKAIVERAKELNVRV 120
Query: 143 TNGNARIRTEENE 155
NGNAR+R EE E
Sbjct: 121 LNGNARLRKEEKE 133
>gnl|CDD|238284 cd00513, Ribosomal_L32_L32e, Ribosomal_L32_L32e: L32 is a protein
from the large subunit that contains a surface-exposed
globular domain and a finger-like projection that
extends into the RNA core to stabilize the tertiary
structure. L32 does not appear to play a role in forming
the A (aminacyl), P (peptidyl) or E (exit) sites of the
ribosome, but does interact with 23S rRNA, which has a
"kink-turn" secondary structure motif. L32 is
overexpressed in human prostate cancer and has been
identified as a stably expressed housekeeping gene in
macrophages of human chronic obstructive pulmonary
disease (COPD) patients. In Schizosaccharomyces pombe,
L32 has also been suggested to play a role as a
transcriptional regulator in the nucleus. Found in
archaea and eukaryotes, this protein is known as L32 in
eukaryotes and L32e in archaea.
Length = 107
Score = 172 bits (438), Expect = 9e-57
Identities = 69/107 (64%), Positives = 85/107 (79%)
Query: 38 KVFIRHQSDRYKKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKV 97
K F RHQSDRYK+L SWRKP+GIDN+VRRRFKG+ MP IGYGS KKTR + P+ F KV
Sbjct: 1 KKFKRHQSDRYKRLGDSWRKPRGIDNKVRRRFKGKPAMPKIGYGSPKKTRGLHPSGFKKV 60
Query: 98 VVHNVKELEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTN 144
+VHNVKELEVL M NR Y A I H V ++KR++IV+RA++L I++ N
Sbjct: 61 LVHNVKELEVLDMHNRTYAARIAHTVGARKRKEIVERAKELGIKVLN 107
>gnl|CDD|190064 pfam01655, Ribosomal_L32e, Ribosomal protein L32. This family
includes ribosomal protein L32 from eukaryotes and
archaebacteria.
Length = 110
Score = 168 bits (427), Expect = 6e-55
Identities = 65/110 (59%), Positives = 85/110 (77%)
Query: 36 RRKVFIRHQSDRYKKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFL 95
+ K F RHQSDRYK+L SWRKP+GIDN+VRRRFKG+ MP IGYGS KK R + P+ F
Sbjct: 1 KTKKFKRHQSDRYKRLKPSWRKPRGIDNKVRRRFKGKPPMPKIGYGSPKKVRGLHPSGFK 60
Query: 96 KVVVHNVKELEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNG 145
+V+VHNVK+LE L+M NR Y A I H V ++KR++IV+RA++L I++ N
Sbjct: 61 EVLVHNVKDLEKLLMDNRTYAARIAHTVGARKRKEIVERAKELGIKVLNP 110
>gnl|CDD|224631 COG1717, RPL32, Ribosomal protein L32E [Translation, ribosomal
structure and biogenesis].
Length = 133
Score = 120 bits (303), Expect = 6e-36
Identities = 52/127 (40%), Positives = 83/127 (65%), Gaps = 3/127 (2%)
Query: 25 KPVYRPKIVKKRRKV-FIRHQSDRYKKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSA 83
K + + + V KR+K F R +SDRYK+L WR+P+GID+++RR+ KG+ M IGY S
Sbjct: 9 KRLLKIRRVLKRKKPEFKRQESDRYKRLGEKWRRPRGIDSKMRRKLKGKPPMVKIGYRSP 68
Query: 84 KKTRHMLPNHFLKVVVHNVKELEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLT 143
K R + P+ + +V+VHNVK+LE L + + A I V ++KR +I++RA++L I++
Sbjct: 69 KAVRGLHPSGYEEVLVHNVKDLEKLDPETQ--AARIASTVGARKRIEILERARELGIKVL 126
Query: 144 NGNARIR 150
N R+
Sbjct: 127 NPGGRVE 133
>gnl|CDD|236288 PRK08562, rpl32e, 50S ribosomal protein L32e; Validated.
Length = 125
Score = 93.1 bits (232), Expect = 3e-25
Identities = 41/115 (35%), Positives = 70/115 (60%), Gaps = 2/115 (1%)
Query: 31 KIVKKRRKVFIRHQSDRYKKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHML 90
+K+++ F R RYK+L WR+P+G+D+++R + KG+ + +GY S K R +
Sbjct: 11 LKLKRKKPEFKRQDWHRYKRLGDKWRRPRGLDSKMRLKLKGKPAIVEVGYRSPKAVRGLH 70
Query: 91 PNHFLKVVVHNVKELEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNG 145
P+ + +V+VHNVKELE L A I V +KR +I+++A++L I++ N
Sbjct: 71 PSGYEEVLVHNVKELEKL--DPETQAARIASTVGKRKRLEILKKARELGIKVLNP 123
>gnl|CDD|183731 PRK12766, PRK12766, 50S ribosomal protein L32e; Provisional.
Length = 232
Score = 54.1 bits (130), Expect = 2e-09
Identities = 33/118 (27%), Positives = 57/118 (48%), Gaps = 6/118 (5%)
Query: 31 KIVKKRRKV----FIRHQSDRYKKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKT 86
+++ +RR+ F R + K+ SWR+P+G ++ RR KG+ G+ +
Sbjct: 106 RLLTQRRREGKPQFNRQDYHKKKRTPTSWRRPRGGLSKQRRGIKGKGDTVEAGFRTPTAV 165
Query: 87 RHMLPNHFLKVVVHNVKELEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTN 144
R P+ F +V VHN +LE + I V ++KR I + A++ IR+ N
Sbjct: 166 RGKHPSGFEEVRVHNTDDLE--GVDGDTEAVRIASKVGARKRERIEEVAEEQGIRVLN 221
>gnl|CDD|216683 pfam01758, SBF, Sodium Bile acid symporter family. This family
consists of Na+/bile acid co-transporters. These
transmembrane proteins function in the liver in the
uptake of bile acids from portal blood plasma a process
mediated by the co-transport of Na+. Also in the family
is ARC3 from S. cerevisiae, this is a putative
transmembrane protein involved in resistance to arsenic
compounds.
Length = 188
Score = 30.7 bits (70), Expect = 0.18
Identities = 10/47 (21%), Positives = 19/47 (40%), Gaps = 5/47 (10%)
Query: 47 RYKKLHRSWRKPKGIDNRVRRRFKGQYL-MPNIGYGSAKKTRHMLPN 92
RY+ +R+PK + Q++ MP + + A + P
Sbjct: 16 RYEDFKELFRRPKA----LLLGLLLQWVIMPLLMFILAWFLLRLPPE 58
>gnl|CDD|205511 pfam13331, DUF4093, Domain of unknown function (DUF4093). This
domain lies at the C-terminus of primase proteins
carrying the TOPRIM, pfam01751, domain. The exact
function of the domain is not known.
Length = 87
Score = 27.8 bits (63), Expect = 1.0
Identities = 15/35 (42%), Positives = 20/35 (57%), Gaps = 3/35 (8%)
Query: 60 GIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHF 94
G D++ RR G+ L IGYG+AK+ L N F
Sbjct: 44 GADSKERREKLGEIL--GIGYGNAKQLLKRL-NMF 75
>gnl|CDD|187844 cd09713, Cas8c_I-C, CRISPR/Cas system-associated protein Cas8c.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Large proteins, some contain Zn-finger domain; signature
gene for I-C subtype; also known as Csx13_N family.
Length = 316
Score = 27.5 bits (61), Expect = 2.9
Identities = 9/30 (30%), Positives = 14/30 (46%)
Query: 16 RGGRTTMSIKPVYRPKIVKKRRKVFIRHQS 45
G T++ K Y P +V+ + HQS
Sbjct: 113 SGAGTSVECKVDYIPVLVEYKIAYSYAHQS 142
>gnl|CDD|227380 COG5047, SEC23, Vesicle coat complex COPII, subunit SEC23
[Intracellular trafficking and secretion].
Length = 755
Score = 27.2 bits (60), Expect = 4.3
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 105 LEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQ 136
+EV +N K IGHAVS KK+ + + ++
Sbjct: 401 MEVKTSKNLKIKGLIGHAVSVKKKANNISDSE 432
>gnl|CDD|165222 PHA02896, PHA02896, A-type inclusion like protein; Provisional.
Length = 616
Score = 26.5 bits (58), Expect = 7.9
Identities = 16/60 (26%), Positives = 24/60 (40%), Gaps = 4/60 (6%)
Query: 12 YNLDRGGRTTMSIKPVYRPKIVKKRRKVFIRHQSD--RYKKLHRSWRK--PKGIDNRVRR 67
Y DRG R + K +P K + +SD R ++ RK G +R R+
Sbjct: 515 YYYDRGHRNLGAEKDPEKPHPDKDEEYPEDKDKSDDDRLNDADKAMRKLEADGFGDRYRK 574
>gnl|CDD|185571 PTZ00349, PTZ00349, dehydrodolichyl diphosphate synthetase;
Provisional.
Length = 322
Score = 26.1 bits (57), Expect = 8.0
Identities = 14/48 (29%), Positives = 26/48 (54%), Gaps = 6/48 (12%)
Query: 101 NVKELEVLMMQNRKYCAE------IGHAVSSKKRRDIVQRAQQLSIRL 142
N+K + ++M NR++ E IGH + SK I++ +L I++
Sbjct: 19 NIKHISIIMDGNRRFAKEKGLHSAIGHFMGSKALIQIIEICIKLKIKI 66
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 0.135 0.392
Gapped
Lambda K H
0.267 0.0860 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,967,025
Number of extensions: 722437
Number of successful extensions: 624
Number of sequences better than 10.0: 1
Number of HSP's gapped: 620
Number of HSP's successfully gapped: 26
Length of query: 155
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 66
Effective length of database: 6,990,096
Effective search space: 461346336
Effective search space used: 461346336
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: 55 (24.7 bits)