RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11361
(200 letters)
>gnl|CDD|240306 PTZ00178, PTZ00178, 60S ribosomal protein L17; Provisional.
Length = 181
Score = 256 bits (657), Expect = 3e-88
Identities = 112/194 (57%), Positives = 146/194 (75%), Gaps = 18/194 (9%)
Query: 1 MGRYSKEPRNPTKSCKARGSNLRVHFKNTRETAKTISKMPLRRAIKFLKNVKDQLECVPF 60
M +Y+++P+NP+KS KA+GS+LRVHFKNT ETA+ I M L RA K+L++V + CVPF
Sbjct: 1 MVKYARKPQNPSKSAKAKGSDLRVHFKNTYETARAIKGMKLARAQKYLEDVLAKKRCVPF 60
Query: 61 RRYNGGVGRCAQAKQWGTTQGRWPRKSADFLLQLLKNAESNADYRGLDTDRLVIEHIQVN 120
RR+NGGVGR AQAK++G TQGRWP KS F+L LLKNAE+NA+ +GLD ++LVI H+QVN
Sbjct: 61 RRFNGGVGRTAQAKEFGHTQGRWPEKSVKFVLSLLKNAEANAEAKGLDVEKLVISHVQVN 120
Query: 121 RAPRLRRRTYRAHGNYRGLDTDRLVIEHIQVNPYMSSPCHIEVILSERERVVAKPREDEP 180
RAPR RRRTYRAHG ++NP+MSSPCHIE+I +E++ V KP+E
Sbjct: 121 RAPRGRRRTYRAHG---------------RINPFMSSPCHIELIATEKDETVPKPKEAP- 164
Query: 181 HKKKISKKKLARAK 194
KK +KK+LAR+K
Sbjct: 165 --KKQTKKQLARSK 176
>gnl|CDD|211620 TIGR01038, L22_arch, ribosomal protein
L22(archaeal)/L17(eukaryotic/archaeal). This model
describes the ribosomal protein of the eukaryotic
cytosol and of the Archaea, variously designated as L17,
L22, and L23. The corresponding bacterial homolog,
described by a separate model, is designated L22
[Protein synthesis, Ribosomal proteins: synthesis and
modification].
Length = 150
Score = 194 bits (494), Expect = 6e-64
Identities = 82/165 (49%), Positives = 110/165 (66%), Gaps = 15/165 (9%)
Query: 4 YSKEPRNPTKSCKARGSNLRVHFKNTRETAKTISKMPLRRAIKFLKNVKDQLECVPFRRY 63
YS +P +PTKS KARG NLRV FKN RETA+ I M L +A K+L++V + VPFRRY
Sbjct: 1 YSYKPEDPTKSAKARGRNLRVSFKNARETARAIRGMELDKARKYLEDVIEMKRAVPFRRY 60
Query: 64 NGGVGRCAQAKQWGTTQGRWPRKSADFLLQLLKNAESNADYRGLDTDRLVIEHIQVNRAP 123
NG VG K+WG T GR+P K+A F+L++L+NAE+NA+Y+GLD ++LVI HIQ N+ P
Sbjct: 61 NGKVGHRRGLKEWGWTAGRYPVKAAKFILKVLQNAEANAEYKGLDVEKLVIIHIQANKGP 120
Query: 124 RLRRRTYRAHGNYRGLDTDRLVIEHIQVNPYMSSPCHIEVILSER 168
++RR RA G + PY SSP HIE+++ E+
Sbjct: 121 KIRRWMPRAFG---------------RATPYNSSPTHIELVVEEK 150
>gnl|CDD|179794 PRK04223, rpl22p, 50S ribosomal protein L22P; Reviewed.
Length = 153
Score = 132 bits (335), Expect = 8e-40
Identities = 59/167 (35%), Positives = 88/167 (52%), Gaps = 18/167 (10%)
Query: 3 RYSKEPRNPTKSCKARGSNLRVHFKNTRETAKTISKMPLRRAIKFLKNVKDQLECVPFRR 62
YS + +P K+ KA G L + K++ E A+ I M L A +L++V VPF+R
Sbjct: 5 NYSVKA-DPEKTAKAMGRELPISPKHSVEIAREIRGMKLDEAKAYLEDVIALKRAVPFKR 63
Query: 63 YNGGVGRCAQAKQWGTTQGRWPRKSADFLLQLLKNAESNADYRGLDTDRLVIEHIQVNRA 122
+N VG + G GR+P K+A L+LL+NAE+NA+Y+GLDT++LVI HI ++
Sbjct: 64 HNKKVGH--RKGIDGWPAGRYPVKAAKAFLKLLENAEANAEYKGLDTEKLVIVHIAAHKG 121
Query: 123 PRLRRRTYRAHGNYRGLDTDRLVIEHIQVNPYMSSPCHIEVILSERE 169
++ RA G + P + +IEVIL E E
Sbjct: 122 RVIKGYMPRAFG---------------RATPKNTETVNIEVILEEVE 153
>gnl|CDD|238205 cd00336, Ribosomal_L22, Ribosomal protein L22/L17e. L22 (L17 in
eukaryotes) is a core protein of the large ribosomal
subunit. It is the only ribosomal protein that
interacts with all six domains of 23S rRNA, and is one
of the proteins important for directing the proper
folding and stabilizing the conformation of 23S rRNA.
L22 is the largest protein contributor to the surface of
the polypeptide exit channel, the tunnel through which
the polypeptide product passes. L22 is also one of six
proteins located at the putative translocon binding site
on the exterior surface of the ribosome.
Length = 105
Score = 109 bits (274), Expect = 3e-31
Identities = 49/152 (32%), Positives = 67/152 (44%), Gaps = 48/152 (31%)
Query: 15 CKARGSNLRVHFKNTRETAKTISKMPLRRAIKFLKNVKDQLECVPFRRYNGGVGRCAQAK 74
KA+G LR+ K R A+ I M + A+ L+ V
Sbjct: 1 AKAKGRYLRISPKKARLVARLIRGMSVDEALAQLEFV----------------------- 37
Query: 75 QWGTTQGRWPRKSADFLLQLLKNAESNADYRGL-DTDRLVIEHIQVNRAPRLRRRTYRAH 133
P+K+A +L+LLK+AE+NA+ GL D D+L I+HIQVN+ P L+RR RA
Sbjct: 38 ---------PKKAAKIILKLLKSAEANAENNGLDDPDKLYIKHIQVNKGPTLKRRRPRAR 88
Query: 134 GNYRGLDTDRLVIEHIQVNPYMSSPCHIEVIL 165
G NP CHI V+L
Sbjct: 89 GRA---------------NPIRKRTCHITVVL 105
>gnl|CDD|143988 pfam00237, Ribosomal_L22, Ribosomal protein L22p/L17e. This family
includes L22 from prokaryotes and chloroplasts and L17
from eukaryotes.
Length = 105
Score = 100 bits (252), Expect = 7e-28
Identities = 39/152 (25%), Positives = 59/152 (38%), Gaps = 48/152 (31%)
Query: 17 ARGSNLRVHFKNTRETAKTISKMPLRRAIKFLKNVKDQLECVPFRRYNGGVGRCAQAKQW 76
A +R+ K R A I + A+ L+ V
Sbjct: 1 AVARYIRISPKKARLVADLIRGKSVEEALAILEFV------------------------- 35
Query: 77 GTTQGRWPRKSADFLLQLLKNAESNAD-YRGLDTDRLVIEHIQVNRAPRLRRRTYRAHGN 135
P+K+A +L+LLK+A +NA+ +GLD D L I+ I V++ P L+R RA G
Sbjct: 36 -------PKKAAKIILKLLKSAVANAENNKGLDPDNLYIKEIFVDKGPTLKRFRPRARG- 87
Query: 136 YRGLDTDRLVIEHIQVNPYMSSPCHIEVILSE 167
+ P HI ++LSE
Sbjct: 88 --------------RATPIRKRTSHITIVLSE 105
>gnl|CDD|223169 COG0091, RplV, Ribosomal protein L22 [Translation, ribosomal
structure and biogenesis].
Length = 120
Score = 93.1 bits (232), Expect = 1e-24
Identities = 39/163 (23%), Positives = 63/163 (38%), Gaps = 48/163 (29%)
Query: 9 RNPTKSCKARGSNLRVHFKNTRETAKTISKMPLRRAIKFLKNVKDQLECVPFRRYNGGVG 68
P KA+ LR+ K R A I + A+ L+ V
Sbjct: 5 VEPEMEAKAKARYLRISPKKARLVADLIRGKKVAEALAILEFV----------------- 47
Query: 69 RCAQAKQWGTTQGRWPRKSADFLLQLLKNAESNADYR-GLDTDRLVIEHIQVNRAPRLRR 127
P+K+A + ++L++A +NA+ GLD D+LV+ HI V++ P L+R
Sbjct: 48 ---------------PKKAAKLVKKVLESAIANAENNKGLDPDKLVVSHIAVDKGPVLKR 92
Query: 128 RTYRAHGNYRGLDTDRLVIEHIQVNPYMSSPCHIEVILSERER 170
RA G + HI V++ E+E+
Sbjct: 93 FMPRARG---------------RATRINKRTSHITVVVREKEK 120
>gnl|CDD|234793 PRK00565, rplV, 50S ribosomal protein L22; Reviewed.
Length = 112
Score = 44.3 bits (106), Expect = 3e-06
Identities = 27/88 (30%), Positives = 43/88 (48%), Gaps = 16/88 (18%)
Query: 84 PRKSADFLLQLLKNAESNADY-RGLDTDRLVIEHIQVNRAPRLRRRTYRAHGNYRGLDTD 142
P+K+A + ++LK+A +NA+ GLD D LV++ V+ P L+R RA G R
Sbjct: 40 PKKAARLVKKVLKSAIANAENNHGLDIDNLVVKEAYVDEGPTLKRFRPRARG--RA---- 93
Query: 143 RLVIEHIQVNPYMSSPCHIEVILSERER 170
HI V+++E+E
Sbjct: 94 -----SRIRKRT----SHITVVVAEKEE 112
>gnl|CDD|138835 PRK12279, PRK12279, 50S ribosomal protein L22/unknown domain fusion
protein; Provisional.
Length = 311
Score = 46.2 bits (109), Expect = 3e-06
Identities = 38/131 (29%), Positives = 62/131 (47%), Gaps = 30/131 (22%)
Query: 84 PRKSADFLLQLLKNAESNADY--RGLDTDRLVIEHIQVNRAPRLRRRTYRAHGNYRGLDT 141
P+K A +L+LL +A SN + + +D +L I I N+ P ++R RA G+
Sbjct: 40 PKKFAPIVLKLLNSAISNVQHNSKDMDPSKLYIYKIVANQGPTMKRTLPRAKGS-----A 94
Query: 142 DRLVIEHIQVNPYMSSPCHIEVILS----ERERVVA--------KPREDEPHKKKISKKK 189
D+L H+E++LS ERE+ +A KP EP K K+ KK
Sbjct: 95 DQLFKRTT----------HLEIVLSDDVNEREKELAAIKAKKSKKPLPVEP-KAKVETKK 143
Query: 190 LARAKEKMLRE 200
+A+ + ++
Sbjct: 144 VAKPSKVEVKP 154
>gnl|CDD|214342 CHL00034, rpl22, ribosomal protein L22.
Length = 117
Score = 34.5 bits (80), Expect = 0.009
Identities = 23/86 (26%), Positives = 38/86 (44%), Gaps = 16/86 (18%)
Query: 84 PRKSADFLLQLLKNAESNADYR-GLDTDRLVIEHIQVNRAPRLRRRTYRAHGNYRGLDTD 142
P ++ +L+L+ +A +NA + GL+ L I +V+ P L+R RA G R
Sbjct: 47 PYRACYPILKLVYSAAANASHNMGLNKANLFISKAEVDEGPTLKRFRPRAQG--RSY--- 101
Query: 143 RLVIEHIQVNPYMSSPCHIEVILSER 168
P CHI ++L +
Sbjct: 102 ----------PIKKPTCHITIVLKDI 117
>gnl|CDD|130116 TIGR01044, rplV_bact, ribosomal protein L22, bacterial type. This
model decribes bacterial and chloroplast ribosomal
protein L22 [Protein synthesis, Ribosomal proteins:
synthesis and modification].
Length = 103
Score = 33.3 bits (76), Expect = 0.020
Identities = 21/52 (40%), Positives = 33/52 (63%), Gaps = 1/52 (1%)
Query: 84 PRKSADFLLQLLKNAESNADYR-GLDTDRLVIEHIQVNRAPRLRRRTYRAHG 134
P+K+A + ++L +A +NA++ GLD D LV+ I V+ P L+R RA G
Sbjct: 36 PKKAAPLIKKVLASAIANAEHNYGLDADNLVVVTIFVDEGPTLKRIRPRAKG 87
>gnl|CDD|227915 COG5628, COG5628, Predicted acetyltransferase [General function
prediction only].
Length = 143
Score = 28.3 bits (63), Expect = 1.6
Identities = 13/56 (23%), Positives = 25/56 (44%), Gaps = 7/56 (12%)
Query: 61 RRYNG-GVGRCAQAKQWGTTQGRWPRKSADFLLQLLKNAESNADYRGLDTDRLVIE 115
R++ GVGR A +G+ G W + + +N + A ++ + V+E
Sbjct: 75 RKHRRRGVGRAAAKAIFGSAWGVW------QVATVRENTPARAFWKRVAETYPVVE 124
>gnl|CDD|129668 TIGR00578, ku70, ATP-dependent DNA helicase II, 70 kDa subunit
(ku70). Proteins in this family are involved in
non-homologous end joining, a process used for the
repair of double stranded DNA breaks. This family is
based on the phylogenomic analysis of JA Eisen (1999,
Ph.D. Thesis, Stanford University). Cutoff does not
detect the putative ku70 homologs in yeast [DNA
metabolism, DNA replication, recombination, and repair].
Length = 584
Score = 26.8 bits (59), Expect = 9.0
Identities = 11/32 (34%), Positives = 16/32 (50%)
Query: 169 ERVVAKPREDEPHKKKISKKKLARAKEKMLRE 200
+R++ ED PH +K AR K LR+
Sbjct: 140 KRIMLFTNEDNPHGNDSAKASRARTKAGDLRD 171
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
0.319 0.134 0.398
Gapped
Lambda K H
0.267 0.0606 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,060,373
Number of extensions: 925566
Number of successful extensions: 909
Number of sequences better than 10.0: 1
Number of HSP's gapped: 886
Number of HSP's successfully gapped: 22
Length of query: 200
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 108
Effective length of database: 6,857,034
Effective search space: 740559672
Effective search space used: 740559672
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 (21.8 bits)
S2: 56 (25.6 bits)