RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 041511
(147 letters)
>gnl|CDD|235532 PRK05610, rpsQ, 30S ribosomal protein S17; Reviewed.
Length = 84
Score = 125 bits (317), Expect = 1e-38
Identities = 41/78 (52%), Positives = 56/78 (71%)
Query: 43 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
K++ G VVS+KM K++VV V+R H +Y + VKR+ K+ AHDENNE IGD VR+ +R
Sbjct: 7 KTLQGRVVSDKMDKTIVVLVERRVKHPLYGKIVKRSKKYHAHDENNEAKIGDVVRIMETR 66
Query: 103 PLSKHKHWLVAEILKKAR 120
PLSK K W + EI++KA
Sbjct: 67 PLSKTKRWRLVEIVEKAV 84
>gnl|CDD|223264 COG0186, RpsQ, Ribosomal protein S17 [Translation, ribosomal
structure and biogenesis].
Length = 87
Score = 114 bits (288), Expect = 2e-34
Identities = 39/79 (49%), Positives = 57/79 (72%)
Query: 43 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
+ + G+VVS+KM K+VVV V+R +H Y +YV+R+ K+ AHDE NE +GD VR+ +R
Sbjct: 9 RVLEGVVVSDKMDKTVVVEVERKVYHPKYGKYVRRSKKYHAHDECNEAKVGDIVRIAETR 68
Query: 103 PLSKHKHWLVAEILKKARI 121
PLSK K ++V EI++KA
Sbjct: 69 PLSKTKRFVVVEIVEKAVE 87
>gnl|CDD|213841 TIGR03635, S17_bact, 30S ribosomal protein S17. This model
describes the bacterial ribosomal small subunit protein
S17, while excluding cytosolic eukaryotic homologs and
archaeal homologs. The model finds many, but not,
chloroplast and mitochondrial counterparts to bacterial
S17 [Protein synthesis, Ribosomal proteins: synthesis
and modification].
Length = 71
Score = 114 bits (287), Expect = 2e-34
Identities = 38/70 (54%), Positives = 52/70 (74%)
Query: 43 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
K++ G+VVS+KM K++VV V+R H +Y + VKRT K+ AHDENNEC +GD VR+ +R
Sbjct: 2 KTLQGVVVSDKMDKTIVVLVERRVKHPLYGKIVKRTKKYHAHDENNECKVGDVVRIIETR 61
Query: 103 PLSKHKHWLV 112
PLSK K W +
Sbjct: 62 PLSKTKRWRL 71
>gnl|CDD|177064 CHL00142, rps17, ribosomal protein S17; Validated.
Length = 84
Score = 99.0 bits (247), Expect = 4e-28
Identities = 39/78 (50%), Positives = 59/78 (75%)
Query: 42 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPS 101
+K +G+VVSNKM K++VVAV+ + H +Y + + +T K++ HDE NECNIGD+V ++ +
Sbjct: 3 VKEKIGIVVSNKMNKTIVVAVENRYKHPIYGKIITKTKKYLVHDEENECNIGDQVLIEET 62
Query: 102 RPLSKHKHWLVAEILKKA 119
RPLSK K W++ EIL K+
Sbjct: 63 RPLSKTKRWILKEILSKS 80
>gnl|CDD|109426 pfam00366, Ribosomal_S17, Ribosomal protein S17.
Length = 69
Score = 88.2 bits (219), Expect = 4e-24
Identities = 32/69 (46%), Positives = 45/69 (65%)
Query: 47 GLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSK 106
G+VVS+KM+K++VV V+RL H Y +Y KRT K+ AHD +GD V++ RPLSK
Sbjct: 1 GVVVSDKMEKTIVVRVERLVPHPKYGKYEKRTKKYPAHDPPCFRKVGDVVKIGECRPLSK 60
Query: 107 HKHWLVAEI 115
K + V +
Sbjct: 61 TKRFRVVRV 69
>gnl|CDD|236296 PRK08572, rps17p, 30S ribosomal protein S17P; Reviewed.
Length = 108
Score = 70.3 bits (173), Expect = 1e-16
Identities = 33/80 (41%), Positives = 48/80 (60%), Gaps = 5/80 (6%)
Query: 43 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNEC---NIGDRVRLD 99
+ + G VVS+KM K+VVV + L + Y RY KR S+ AH N C +GD+V++
Sbjct: 30 QVLEGTVVSDKMHKTVVVEREYLHYVPKYERYEKRRSRIHAH--NPPCIDAKVGDKVKIA 87
Query: 100 PSRPLSKHKHWLVAEILKKA 119
RPLSK K ++V E ++A
Sbjct: 88 ECRPLSKTKSFVVVEKKERA 107
>gnl|CDD|132669 TIGR03630, arch_S17P, archaeal ribosomal protein S17P. This model
describes exclusively the archaeal ribosomal protein
S17P. It excludes the homologous ribosomal protein S17
from bacteria, and is not intended for use on eukaryotic
sequences, where some instances of ribosomal proteins
S11 score above the trusted cutoff [Protein synthesis,
Ribosomal proteins: synthesis and modification].
Length = 102
Score = 65.0 bits (159), Expect = 9e-15
Identities = 31/74 (41%), Positives = 44/74 (59%), Gaps = 5/74 (6%)
Query: 46 VGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNEC---NIGDRVRLDPSR 102
G+VVS+KM K+VVV + L++ + Y RY +R SK AH N C GD V + +R
Sbjct: 31 EGVVVSDKMNKTVVVEREYLYYDRKYERYERRRSKIHAH--NPPCIDVKEGDIVIIGETR 88
Query: 103 PLSKHKHWLVAEIL 116
PLSK K ++V +
Sbjct: 89 PLSKTKSFVVLGKV 102
>gnl|CDD|240326 PTZ00241, PTZ00241, 40S ribosomal protein S11; Provisional.
Length = 158
Score = 43.2 bits (102), Expect = 6e-06
Identities = 25/73 (34%), Positives = 39/73 (53%), Gaps = 1/73 (1%)
Query: 47 GLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENN-ECNIGDRVRLDPSRPLS 105
G+V+S KM++++++ D L + K YNRY KR H + GD V + RPLS
Sbjct: 73 GVVISTKMKRTIIIRRDYLHYVKKYNRYEKRHKNIPVHCSPCFDVKEGDIVVVGQCRPLS 132
Query: 106 KHKHWLVAEILKK 118
K + V ++ K
Sbjct: 133 KTVRFNVLKVEKN 145
>gnl|CDD|129951 TIGR00873, gnd, 6-phosphogluconate dehydrogenase
(decarboxylating). This model does not specify whether
the cofactor is NADP only (EC 1.1.1.44), NAD only, or
both. The model does not assign an EC number for that
reason [Energy metabolism, Pentose phosphate pathway].
Length = 467
Score = 26.5 bits (59), Expect = 6.0
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 45 VVGLVVSNKMQKSVVV-AVDRLFHHKVYNRYVKRTSKFMA 83
V+GL V M ++ + D F VYNR ++T +F+A
Sbjct: 4 VIGLAV---MGSNLALNMADHGFTVSVYNRTPEKTDEFLA 40
>gnl|CDD|223147 COG0069, GltB, Glutamate synthase domain 2 [Amino acid transport
and metabolism].
Length = 485
Score = 26.4 bits (59), Expect = 6.2
Identities = 10/18 (55%), Positives = 11/18 (61%), Gaps = 1/18 (5%)
Query: 8 PPPHHRFLSCAVDLRQLL 25
PPPHH S DL QL+
Sbjct: 278 PPPHHDIYS-IEDLAQLI 294
>gnl|CDD|239172 cd02771, MopB_NDH-1_NuoG2-N7, MopB_NDH-1_NuoG2-N7: The second
domain of the NuoG subunit (with a [4Fe-4S] cluster, N7)
of the NADH-quinone oxidoreductase/NADH dehydrogenase-1
(NDH-1) found in various bacteria. The NDH-1 is the
first energy-transducting complex in the respiratory
chain and functions as a redox pump that uses the redox
energy to translocate H+ ions across the membrane,
resulting in a significant contribution to energy
production. In Escherichia coli NDH-1, the largest
subunit is encoded by the nuoG gene, and is part of the
14 distinct subunits constituting the functional enzyme.
The NuoG subunit is made of two domains: the first
contains three binding sites for FeS clusters (the fer2
domain), the second domain (this CD), is of unknown
function or, as postulated, has lost an ancestral
formate dehydrogenase activity that became redundant
during the evolution of the complex I enzyme. Unique to
this group, compared to the other prokaryotic and
eukaryotic groups in this domain protein family
(NADH-Q-OR-NuoG2), is an N-terminal [4Fe-4S] cluster
(N7/N1c) present in the second domain. Although only
vestigial sequence evidence remains of a molybdopterin
binding site, this protein domain belongs to the
molybdopterin_binding (MopB) superfamily of proteins.
Length = 472
Score = 26.6 bits (59), Expect = 6.5
Identities = 14/39 (35%), Positives = 19/39 (48%), Gaps = 4/39 (10%)
Query: 110 WLVAEILKKARIYVPPSADNAAAAAV----SNPETEAPV 144
L+AEIL+ IY+P D +A AV + AP
Sbjct: 124 RLIAEILRNGPIYIPSLRDIESADAVLVLGEDLTQTAPR 162
>gnl|CDD|165207 PHA02876, PHA02876, ankyrin repeat protein; Provisional.
Length = 682
Score = 26.2 bits (57), Expect = 7.9
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 12/56 (21%)
Query: 65 LFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSKHKHWLVAEILKKAR 120
L HH V N +K + + CN GDR++ S +H EIL+K+R
Sbjct: 601 LLHHLVNNPIIKEINTWHF------CNYGDRLKTSISLASDRH------EILEKSR 644
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 0.129 0.384
Gapped
Lambda K H
0.267 0.0804 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,323,274
Number of extensions: 616680
Number of successful extensions: 590
Number of sequences better than 10.0: 1
Number of HSP's gapped: 586
Number of HSP's successfully gapped: 19
Length of query: 147
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 59
Effective length of database: 7,034,450
Effective search space: 415032550
Effective search space used: 415032550
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 (21.7 bits)
S2: 54 (24.4 bits)