RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 031769
(153 letters)
>gnl|CDD|235464 PRK05435, rpmA, 50S ribosomal protein L27; Validated.
Length = 82
Score = 146 bits (372), Expect = 5e-47
Identities = 54/82 (65%), Positives = 63/82 (76%), Gaps = 1/82 (1%)
Query: 45 ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
A KK GST+NGRDS+ K LGVK+FGG+ V GNIIVRQRGT+FHPG VG GKDHTL+A
Sbjct: 2 AHKKGGGSTRNGRDSESKRLGVKRFGGQFVKAGNIIVRQRGTKFHPGVNVGRGKDHTLFA 61
Query: 105 LKEGRVKFEKHKLSGRKWVHVE 126
L +G VKFE+ K RK+V V
Sbjct: 62 LVDGVVKFER-KGRNRKYVSVV 82
>gnl|CDD|201553 pfam01016, Ribosomal_L27, Ribosomal L27 protein.
Length = 80
Score = 144 bits (365), Expect = 5e-46
Identities = 58/81 (71%), Positives = 64/81 (79%), Gaps = 1/81 (1%)
Query: 45 ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
A KK GSTKNGRDS K LGVKKFGG+ V GNIIVRQRGT+FHPG+ VGMGKDHTL+A
Sbjct: 1 AHKKGGGSTKNGRDSNGKRLGVKKFGGQFVKAGNIIVRQRGTKFHPGENVGMGKDHTLFA 60
Query: 105 LKEGRVKFEKHKLSGRKWVHV 125
L +G VKFEK K RK+V V
Sbjct: 61 LVDGYVKFEK-KPKNRKYVSV 80
>gnl|CDD|223289 COG0211, RpmA, Ribosomal protein L27 [Translation, ribosomal
structure and biogenesis].
Length = 87
Score = 135 bits (343), Expect = 1e-42
Identities = 55/85 (64%), Positives = 64/85 (75%), Gaps = 1/85 (1%)
Query: 45 ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
A KK GST+NGRDS+ K LGVKKFGG+ V G+IIVRQRGT+FHPG VG GKDHTL+A
Sbjct: 2 AHKKGGGSTRNGRDSESKRLGVKKFGGQFVKAGSIIVRQRGTKFHPGVNVGRGKDHTLFA 61
Query: 105 LKEGRVKFEKHKLSGRKWVHVEPKE 129
L +G VKFE K RK+V V P+
Sbjct: 62 LVDGVVKFET-KGKNRKYVSVVPEA 85
>gnl|CDD|214370 CHL00121, rpl27, ribosomal protein L27; Reviewed.
Length = 86
Score = 123 bits (310), Expect = 1e-37
Identities = 49/77 (63%), Positives = 57/77 (74%)
Query: 45 ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
A KK AGSTKNGRDS K LGVK+FGGE+V GNI++RQRGT+F PG VG GKD TLYA
Sbjct: 2 AHKKGAGSTKNGRDSNAKRLGVKRFGGEKVSAGNILIRQRGTKFKPGLNVGCGKDFTLYA 61
Query: 105 LKEGRVKFEKHKLSGRK 121
L +G VKF+K +
Sbjct: 62 LIDGFVKFKKKNKKQKS 78
>gnl|CDD|232803 TIGR00062, L27, ribosomal protein L27. Eubacterial, chloroplast,
and mitochondrial. Mitochondrial members have an
additional C-terminal domain [Protein synthesis,
Ribosomal proteins: synthesis and modification].
Length = 83
Score = 112 bits (282), Expect = 2e-33
Identities = 55/82 (67%), Positives = 64/82 (78%)
Query: 45 ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
ATKK GSTKNGRDS+ K LGVK+ GG+ V G+IIVRQRGT+FHPG+ VGMGKDHTL+A
Sbjct: 2 ATKKGVGSTKNGRDSEAKRLGVKRAGGQFVRAGSIIVRQRGTKFHPGNNVGMGKDHTLFA 61
Query: 105 LKEGRVKFEKHKLSGRKWVHVE 126
L +G VKFEK RK+V V
Sbjct: 62 LSDGVVKFEKKGKRSRKFVSVV 83
>gnl|CDD|214363 CHL00099, ilvB, acetohydroxyacid synthase large subunit.
Length = 585
Score = 32.0 bits (73), Expect = 0.11
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 5/40 (12%)
Query: 54 KNGRDSK-----PKNLGVKKFGGERVIPGNIIVRQRGTRF 88
K+GR PK++G++KF PGN I++ G R
Sbjct: 159 KHGRPGPVLIDIPKDVGLEKFDYYPPEPGNTIIKILGCRP 198
>gnl|CDD|183787 PRK12844, PRK12844, 3-ketosteroid-delta-1-dehydrogenase; Reviewed.
Length = 557
Score = 28.2 bits (63), Expect = 2.0
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 4/37 (10%)
Query: 70 GGERVIPGNIIVRQRGTRF--HPGDYVGMGKDHTLYA 104
ER PG+IIV + G RF G Y+ +G+ +YA
Sbjct: 334 NSERSKPGSIIVDRAGRRFVNEAGSYMEVGR--AMYA 368
>gnl|CDD|236111 PRK07843, PRK07843, 3-ketosteroid-delta-1-dehydrogenase; Reviewed.
Length = 557
Score = 27.3 bits (61), Expect = 3.5
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 72 ERVIPGNIIVRQRGTRF 88
ER +PG+IIV G RF
Sbjct: 333 ERNLPGSIIVNMSGKRF 349
>gnl|CDD|237226 PRK12845, PRK12845, 3-ketosteroid-delta-1-dehydrogenase; Reviewed.
Length = 564
Score = 27.4 bits (61), Expect = 3.8
Identities = 13/29 (44%), Positives = 18/29 (62%), Gaps = 2/29 (6%)
Query: 72 ERVIPGNIIVRQRGTRF--HPGDYVGMGK 98
ER +PG++IV Q G RF DY+ G+
Sbjct: 344 ERSLPGSLIVDQTGRRFVNEATDYMSFGQ 372
>gnl|CDD|235297 PRK04423, PRK04423, organic solvent tolerance protein; Provisional.
Length = 798
Score = 26.4 bits (58), Expect = 7.9
Identities = 13/40 (32%), Positives = 19/40 (47%), Gaps = 3/40 (7%)
Query: 5 NFANTLCKRLNVKELVSNVSVYGSVADGSAGGLSLMFRRW 44
+F + L + L S V +YG+ +AG LM RW
Sbjct: 330 DFTSRLNGMGSASSLQSTVGIYGTGETWTAG---LMADRW 366
>gnl|CDD|217574 pfam03463, eRF1_1, eRF1 domain 1. The release factor eRF1
terminates protein biosynthesis by recognising stop
codons at the A site of the ribosome and stimulating
peptidyl-tRNA bond hydrolysis at the peptidyl
transferase centre. The crystal structure of human eRF1
is known. The overall shape and dimensions of eRF1
resemble a tRNA molecule with domains 1, 2, and 3 of
eRF1 corresponding to the anticodon loop, aminoacyl
acceptor stem, and T stem of a tRNA molecule,
respectively. The position of the essential GGQ motif at
an exposed tip of domain 2 suggests that the Gln residue
coordinates a water molecule to mediate the hydrolytic
activity at the peptidyl transferase centre. A conserved
groove on domain 1, 80 A from the GGQ motif, is proposed
to form the codon recognition site. This family also
includes other proteins for which the precise molecular
function is unknown. Many of them are from
Archaebacteria. These proteins may also be involved in
translation termination but this awaits experimental
verification.
Length = 133
Score = 25.6 bits (57), Expect = 9.1
Identities = 21/94 (22%), Positives = 34/94 (36%), Gaps = 7/94 (7%)
Query: 38 SLMFRRWATKKTAGSTKNGRDSKPKNLGVKKFGGERV--IPGNIIVRQRGTRFHPGDYVG 95
S R+ + + +K R+ L + ER+ P N ++R GT +
Sbjct: 41 SDTTRKLQDEYSNIKSKVTRERVQSALTIAV---ERLKFDPENGLLRFCGTIIEENEDGK 97
Query: 96 MGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPKE 129
+GK HTL ++ R K E E
Sbjct: 98 LGKYHTL-DIEPPR-PITISKYRWDSKFLTELLE 129
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 0.133 0.395
Gapped
Lambda K H
0.267 0.0775 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,652,642
Number of extensions: 678474
Number of successful extensions: 484
Number of sequences better than 10.0: 1
Number of HSP's gapped: 484
Number of HSP's successfully gapped: 21
Length of query: 153
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 64
Effective length of database: 6,990,096
Effective search space: 447366144
Effective search space used: 447366144
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: 55 (24.9 bits)