RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 031653
(155 letters)
>gnl|CDD|185442 PTZ00096, PTZ00096, 40S ribosomal protein S15; Provisional.
Length = 143
Score = 257 bits (659), Expect = 6e-90
Identities = 99/143 (69%), Positives = 119/143 (83%)
Query: 11 AAAAGLPKKRTFKKFSFRGVDLDALLDMSNDELVKLFSARARRRFQRGLKRKPMALIKKL 70
L KKRTFKKF++RGV+L+ LL + +ELV+LF AR RRR RG+KRK L+KKL
Sbjct: 1 EMYEQLKKKRTFKKFTYRGVELEKLLALPEEELVELFRARQRRRINRGIKRKHPTLLKKL 60
Query: 71 RKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEIKPEMIGHYLAEFS 130
RKAK+ PGEKP+ V+THLR+MIIVPEM+GS++GVYNGK FN VEIKPEMIGHYL EFS
Sbjct: 61 RKAKKATKPGEKPKAVKTHLRDMIIVPEMVGSVVGVYNGKQFNNVEIKPEMIGHYLGEFS 120
Query: 131 ISYKPVKHGRPGIGATHSSRFIP 153
I+YKPV+HG+PG+GATHSSRFIP
Sbjct: 121 ITYKPVRHGKPGVGATHSSRFIP 143
>gnl|CDD|130097 TIGR01025, rpsS_arch, ribosomal protein
S19(archaeal)/S15(eukaryotic). This model represents
eukaryotic ribosomal protein S15 and its archaeal
equivalent. It excludes bacterial and organellar
ribosomal protein S19. The nomenclature for the archaeal
members is unresolved and given variously as S19 (after
the more distant bacterial homologs) or S15 [Protein
synthesis, Ribosomal proteins: synthesis and
modification].
Length = 135
Score = 223 bits (569), Expect = 2e-76
Identities = 95/135 (70%), Positives = 109/135 (80%)
Query: 21 TFKKFSFRGVDLDALLDMSNDELVKLFSARARRRFQRGLKRKPMALIKKLRKAKREAPPG 80
TFK+F +RG L+ L DMS +EL KL AR RRR +RGL K L+KKLRKAK+EAP G
Sbjct: 1 TFKEFRYRGYTLEELQDMSLEELAKLLPARQRRRLKRGLTPKQKKLLKKLRKAKKEAPKG 60
Query: 81 EKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEIKPEMIGHYLAEFSISYKPVKHGR 140
EKPE +RTH R+MII+PEM+GS +GVYNGK F QVEIKPEMIGHYL EFSI+ KPVKHGR
Sbjct: 61 EKPEVIRTHCRDMIILPEMVGSTVGVYNGKEFVQVEIKPEMIGHYLGEFSITRKPVKHGR 120
Query: 141 PGIGATHSSRFIPLK 155
PGIGAT SS F+PLK
Sbjct: 121 PGIGATRSSMFVPLK 135
>gnl|CDD|235209 PRK04038, rps19p, 30S ribosomal protein S19P; Provisional.
Length = 134
Score = 178 bits (455), Expect = 7e-59
Identities = 72/133 (54%), Positives = 98/133 (73%), Gaps = 3/133 (2%)
Query: 23 KKFSFRGVDLDALLDMSNDELVKLFSARARRRFQRGLKRKPMALIKKLRKAKREAPPGEK 82
K+F++RG L+ L +MS +E +L AR RR +RGL + L++K+RKA+RE +K
Sbjct: 5 KEFTYRGYTLEELQEMSLEEFAELLPARQRRSLKRGLTPEQRKLLEKIRKARRE---KKK 61
Query: 83 PEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEIKPEMIGHYLAEFSISYKPVKHGRPG 142
+RTH+R+MII+PEM+G I VYNGK F +VEI PEMIGHYL EF+++ K V+HG PG
Sbjct: 62 GRVIRTHVRDMIILPEMVGLTIAVYNGKEFVEVEIVPEMIGHYLGEFALTRKRVQHGSPG 121
Query: 143 IGATHSSRFIPLK 155
IGAT SS+F+PLK
Sbjct: 122 IGATRSSKFVPLK 134
>gnl|CDD|201079 pfam00203, Ribosomal_S19, Ribosomal protein S19.
Length = 81
Score = 130 bits (329), Expect = 1e-40
Identities = 40/82 (48%), Positives = 50/82 (60%), Gaps = 1/82 (1%)
Query: 57 RGLKRKPMALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVE 116
R LK+ P +K LRK K+E EK E ++T R I+PEM+G I VYNGK F V
Sbjct: 1 RSLKKGPFVDLKLLRKIKKENTKNEK-EVIKTWSRRSTILPEMVGHTIAVYNGKEFVPVY 59
Query: 117 IKPEMIGHYLAEFSISYKPVKH 138
I PEM+GH L EF+ + K V H
Sbjct: 60 ITPEMVGHKLGEFAPTRKFVGH 81
>gnl|CDD|223263 COG0185, RpsS, Ribosomal protein S19 [Translation, ribosomal
structure and biogenesis].
Length = 93
Score = 122 bits (309), Expect = 2e-37
Identities = 43/98 (43%), Positives = 56/98 (57%), Gaps = 5/98 (5%)
Query: 51 ARRRFQRGLKRKPMALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGK 110
RR ++G L+KK+RKAK K +P++T R I+PEM+G I V+NGK
Sbjct: 1 MRRSLKKGPFVDK-HLLKKVRKAKES----GKKKPIKTWSRRSTILPEMVGLTIAVHNGK 55
Query: 111 TFNQVEIKPEMIGHYLAEFSISYKPVKHGRPGIGATHS 148
F VEI EM+GH L EF+ + V HG GI AT S
Sbjct: 56 KFVPVEITEEMVGHKLGEFAPTRTFVGHGADGIKATRS 93
>gnl|CDD|178985 PRK00357, rpsS, 30S ribosomal protein S19; Reviewed.
Length = 92
Score = 60.6 bits (148), Expect = 6e-13
Identities = 28/77 (36%), Positives = 42/77 (54%), Gaps = 7/77 (9%)
Query: 57 RGLKRKPMA---LIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFN 113
R LK+ P L+KK+ KA G+K + ++T R I+PE +G I V+NG+
Sbjct: 3 RSLKKGPFVDGHLLKKVEKANES---GDK-KVIKTWSRRSTILPEFVGLTIAVHNGRKHV 58
Query: 114 QVEIKPEMIGHYLAEFS 130
V + M+GH L EF+
Sbjct: 59 PVYVTENMVGHKLGEFA 75
>gnl|CDD|130122 TIGR01050, rpsS_bact, ribosomal protein S19, bacterial/organelle.
The homologous protein of the eukaryotic cytosol and of
the Archaea may be designated S15 or S19 [Protein
synthesis, Ribosomal proteins: synthesis and
modification].
Length = 92
Score = 58.5 bits (142), Expect = 3e-12
Identities = 31/77 (40%), Positives = 42/77 (54%), Gaps = 7/77 (9%)
Query: 57 RGLKRKPMA---LIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFN 113
R LK+ P L+KK+ K K + ++T R I+PEMIG I V+NGK F
Sbjct: 3 RSLKKGPFVDHHLLKKVEKLNE----SGKKKVIKTWSRRSTIIPEMIGHTIAVHNGKKFI 58
Query: 114 QVEIKPEMIGHYLAEFS 130
V I +M+GH L EF+
Sbjct: 59 PVYITEDMVGHKLGEFA 75
>gnl|CDD|176991 CHL00050, rps19, ribosomal protein S19.
Length = 92
Score = 53.4 bits (129), Expect = 3e-10
Identities = 29/77 (37%), Positives = 41/77 (53%), Gaps = 7/77 (9%)
Query: 57 RGLKRKPMA---LIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFN 113
R LK+ P L+KK+ K + E+ E + T R I+P MIG I V+NGK
Sbjct: 3 RSLKKNPFVANHLLKKIEKLNTK----EEKEIIVTWSRASTIIPTMIGHTIAVHNGKEHI 58
Query: 114 QVEIKPEMIGHYLAEFS 130
+ I +M+GH L EF+
Sbjct: 59 PIYITDQMVGHKLGEFA 75
>gnl|CDD|178692 PLN03147, PLN03147, ribosomal protein S19; Provisional.
Length = 92
Score = 31.1 bits (70), Expect = 0.060
Identities = 13/40 (32%), Positives = 23/40 (57%)
Query: 95 IVPEMIGSIIGVYNGKTFNQVEIKPEMIGHYLAEFSISYK 134
I+P+ + + +YNGKT + +I +GH EF+ + K
Sbjct: 35 ILPDFVDCSVLIYNGKTHIRCKITEGKVGHKFGEFAFTRK 74
>gnl|CDD|188886 cd09487, SAM_superfamily, SAM (Sterile alpha motif ). SAM
(Sterile Alpha Motif) domain is a module consisting of
approximately 70 amino acids. This domain is found in
the Fungi/Metazoa group and in a restricted number of
bacteria. Proteins with SAM domains are represented by
a wide variety of domain architectures and have
different intracellular localization, including
nucleus, cytoplasm and membranes. SAM domains have
diverse functions. They can interact with proteins,
RNAs and membrane lipids, contain site of
phosphorylation and/or kinase docking site, and play a
role in protein homo and hetero
dimerization/oligomerization in processes ranging from
signal transduction to regulation of transcription.
Mutations in SAM domains have been linked to several
diseases.
Length = 56
Score = 29.1 bits (66), Expect = 0.16
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 6/53 (11%)
Query: 12 AAAGLPK-KRTFKKFSFRGVDLDALLDMSNDELVKL--FSARARRRFQRGLKR 61
+ GL + F+K +D DALL +++++L +L S R++ R ++R
Sbjct: 7 ESLGLEQYADLFRK---NEIDGDALLLLTDEDLKELGITSPGHRKKILRAIQR 56
>gnl|CDD|237377 PRK13405, bchH, magnesium chelatase subunit H; Provisional.
Length = 1209
Score = 30.4 bits (69), Expect = 0.42
Identities = 22/57 (38%), Positives = 28/57 (49%), Gaps = 4/57 (7%)
Query: 28 RGVDLDALLD-MSNDELVKLFSARARRRFQRGLKRKPMALIKKLR-KAKREAPPGEK 82
R DA++ MS E+VKL R + G P+AL+KKLR K K GE
Sbjct: 93 RRDACDAMVGCMSAGEVVKL--TRMGKFDMSGPASGPLALLKKLRGKKKEGGSSGEG 147
>gnl|CDD|220298 pfam09582, AnfO_nitrog, Iron only nitrogenase protein AnfO
(AnfO_nitrog). Proteins in this entry include Anf1 from
Rhodobacter capsulatus (Rhodopseudomonas capsulata) and
AnfO from Azotobacter vinelandii. They are found
exclusively in species which contain the iron-only
nitrogenase, and are encoded immediately downstream of
the structural genes for the nitrogenase enzyme in these
species.
Length = 201
Score = 29.2 bits (66), Expect = 0.73
Identities = 23/99 (23%), Positives = 36/99 (36%), Gaps = 16/99 (16%)
Query: 60 KRKPMALIKKLRKAKREAPPGEKPEPV-------RTHLRN-MIIVPEMIGS---IIGVYN 108
K KK R+A E P + P P+ R L+ P+ + S +I
Sbjct: 103 AEKEEEEAKKEREAADEPPNFDIPVPLELGDGRFRLDLKEIQKKNPD-LTSKQVLIPFLE 161
Query: 109 GKTFNQVEIK----PEMIGHYLAEFSISYKPVKHGRPGI 143
FN++EI P L + + + GRP +
Sbjct: 162 NGGFNELEILCSHVPPWFEAELDALGLKAEIEELGRPEV 200
>gnl|CDD|217145 pfam02616, ScpA_ScpB, ScpA/B protein. ScpA and ScpB participate in
chromosomal partition during cell division. It may act
via the formation of a condensin-like complex containing
smc that pull DNA away from mid-cell into both cell
halves. These proteins are part of the Kleisin
superfamily.
Length = 177
Score = 28.9 bits (65), Expect = 0.94
Identities = 18/77 (23%), Positives = 33/77 (42%), Gaps = 4/77 (5%)
Query: 6 ADVAVAAAAGLPKK--RTFKKFSFRGVDLDALLDMSNDELVKLFSARARR--RFQRGLKR 61
D + A+ L K + FS + V LD + +ELV++ + F + +KR
Sbjct: 37 TDYLLIASILLRMKAEALLRSFSKKPVTLDEFIKTLEEELVEVEKSVLDLIHAFNKLVKR 96
Query: 62 KPMALIKKLRKAKREAP 78
K ++K + + E
Sbjct: 97 KRKNRLRKKNETELEVS 113
>gnl|CDD|205721 pfam13543, KSR1-SAM, SAM like domain present in kinase suppressor
RAS 1.
Length = 129
Score = 28.1 bits (63), Expect = 1.2
Identities = 11/38 (28%), Positives = 18/38 (47%), Gaps = 5/38 (13%)
Query: 28 RGVDLDALLDMSNDELVKL-----FSARARRRFQRGLK 60
R + L+ LL+MS+ EL ++ S RR +
Sbjct: 89 RLLTLEQLLEMSDKELRQILSNVGASEEECRRLTAAMA 126
>gnl|CDD|179366 PRK02102, PRK02102, ornithine carbamoyltransferase; Validated.
Length = 331
Score = 28.3 bits (64), Expect = 1.5
Identities = 13/50 (26%), Positives = 25/50 (50%), Gaps = 7/50 (14%)
Query: 25 FSFRGVDLDALLDMSNDEL-------VKLFSARARRRFQRGLKRKPMALI 67
F+ +G LLD + +E+ ++L +A+ + L+ K +ALI
Sbjct: 3 FNLKGRSFLKLLDFTPEEIEYLIDLSIELKAAKKAGIEHQYLEGKNIALI 52
>gnl|CDD|179392 PRK02249, PRK02249, DNA primase large subunit; Validated.
Length = 343
Score = 27.6 bits (62), Expect = 2.9
Identities = 14/50 (28%), Positives = 19/50 (38%), Gaps = 3/50 (6%)
Query: 28 RGVDLDALLDMSNDELVKLFSARARRRFQRGLKRKPMALIKKLRKAKREA 77
GV LD LL RAR R +R L + + L + + E
Sbjct: 21 AGVSLDDLLASDAYGSAV---ERARERVERALTGETVKEPSDLDRPEVEL 67
>gnl|CDD|223425 COG0348, NapH, Polyferredoxin [Energy production and conversion].
Length = 386
Score = 27.4 bits (61), Expect = 2.9
Identities = 11/63 (17%), Positives = 19/63 (30%), Gaps = 5/63 (7%)
Query: 64 MALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEIKPEMIG 123
+ L+ L + + + R+ + I Y GK N+ E K
Sbjct: 299 LQLVSPLGLFRLKVRDP--LILLVCRDRDCLFACN---VGINDYTGKFINKGEFKSAKCV 353
Query: 124 HYL 126
L
Sbjct: 354 GGL 356
>gnl|CDD|234013 TIGR02785, addA_Gpos, helicase-exonuclease AddAB, AddA subunit,
Firmicutes type. AddAB, also called RexAB, substitutes
for RecBCD in several bacterial lineages. These DNA
recombination proteins act before synapse and are
particularly important for DNA repair of
double-stranded breaks by homologous recombination. The
term AddAB is used broadly, with AddA homologous
between the Firmicutes (as modeled here) and the
alphaproteobacteria, while the partner AddB proteins
show no strong homology across the two groups of
species [DNA metabolism, DNA replication,
recombination, and repair].
Length = 1230
Score = 27.4 bits (61), Expect = 3.6
Identities = 28/99 (28%), Positives = 41/99 (41%), Gaps = 27/99 (27%)
Query: 2 ADGDADVAVAAAAGLPK-----KRTFKKFSFRGVDLDALLDMSNDELVKLFSARARRRFQ 56
D+ V+A+AG K +R +K + RGVD+D L LV F+ A R +
Sbjct: 11 YTRGQDILVSASAGSGKTAVLVERIIRKIT-RGVDVDRL-------LVVTFTNAAAREMK 62
Query: 57 RGLKRKPMALIKKLRKAKREAPPGEKPEPVRTHLRNMII 95
+ AL K+L + EP HLR +
Sbjct: 63 ERIAE---ALEKELVQ-----------EPNSKHLRRQLA 87
>gnl|CDD|222208 pfam13537, GATase_7, Glutamine amidotransferase domain. This
domain is a class-II glutamine amidotransferase domain
found in a variety of enzymes such as asparagine
synthetase and glutamine-fructose-6-phosphate
transaminase.
Length = 120
Score = 26.3 bits (59), Expect = 4.2
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 8/44 (18%)
Query: 89 HLRNMIIVPE-----MI---GSIIGVYNGKTFNQVEIKPEMIGH 124
H R I E M+ G + V+NG+ +N E++ E+
Sbjct: 1 HRRLSIDDSEGGAQPMVSEDGRYVIVFNGEIYNYRELRAELEAK 44
>gnl|CDD|151614 pfam11172, DUF2959, Protein of unknown function (DUF2959). This
family of proteins with unknown function appears to be
restricted to Gammaproteobacteria.
Length = 201
Score = 26.8 bits (60), Expect = 4.6
Identities = 23/62 (37%), Positives = 33/62 (53%), Gaps = 9/62 (14%)
Query: 33 DALLDMSNDELVKLFSARARRRFQRGL---KRKPMALIKKLRKAKREAPPGEKPEPVRTH 89
+AL D DEL + +A RR QR L +R+ LI+ +++A+ K EPV T
Sbjct: 95 EALFDEWEDELDQYSNASLRRSSQRKLRETRRQYRQLIRAMKRAEA------KMEPVLTA 148
Query: 90 LR 91
LR
Sbjct: 149 LR 150
>gnl|CDD|215059 PLN00111, PLN00111, accumulation of photosystem one; Provisional.
Length = 399
Score = 26.9 bits (60), Expect = 4.7
Identities = 8/42 (19%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 60 KRKPMALIKKLRKAKREA-PPGEKPEPVRTHLRNMIIVPEMI 100
K P + R+A+ + +PE +N ++V ++
Sbjct: 53 KPYPRPMKLLRREAREKKKLRKLQPERPLDPPKNGLLVKRLV 94
>gnl|CDD|148523 pfam06952, PsiA, PsiA protein. This family consists of several
Enterobacterial PsiA proteins. The function of PsiA is
unknown although it is thought that it may affect the
generation of an SOS signal in Escherichia coli.
Length = 238
Score = 26.3 bits (58), Expect = 6.5
Identities = 13/43 (30%), Positives = 23/43 (53%)
Query: 35 LLDMSNDELVKLFSARARRRFQRGLKRKPMALIKKLRKAKREA 77
L +S D +LF RR +R +++ +A +K+R+ RE
Sbjct: 95 PLPLSGDVQAELFPEVRHRRTERRRQKQDIAFTRKMRQEAREV 137
>gnl|CDD|219069 pfam06512, Na_trans_assoc, Sodium ion transport-associated.
Members of this family contain a region found
exclusively in eukaryotic sodium channels or their
subunits, many of which are voltage-gated. Members very
often also contain between one and four copies of
pfam00520 and, less often, one copy of pfam00612.
Length = 230
Score = 26.2 bits (58), Expect = 7.2
Identities = 13/35 (37%), Positives = 16/35 (45%), Gaps = 4/35 (11%)
Query: 54 RFQRG---LKRKPMALIKKLRKAKREAPPGEKPEP 85
R QRG +KR KKL K K+ E+ E
Sbjct: 13 RIQRGINWVKRNIRDFFKKLLK-KKPKEIDEQTEA 46
>gnl|CDD|232831 TIGR00115, tig, trigger factor. Trigger factor is a
ribosome-associated molecular chaperone and is the first
chaperone to interact with nascent polypeptide. Trigger
factor can bind at the same time as the signal
recognition particle (SRP), but is excluded by the SRP
receptor (FtsY). The central domain of trigger factor
has peptidyl-prolyl cis/trans isomerase activity. This
protein is found in a single copy in virtually every
bacterial genome [Protein fate, Protein folding and
stabilization].
Length = 408
Score = 26.4 bits (59), Expect = 7.5
Identities = 12/41 (29%), Positives = 23/41 (56%)
Query: 19 KRTFKKFSFRGVDLDALLDMSNDELVKLFSARARRRFQRGL 59
++ ++ +G+DL+ L + +EL + F A RR + GL
Sbjct: 305 EQALQQLQQQGIDLEEYLKDTEEELREEFREEAERRVKLGL 345
>gnl|CDD|201987 pfam01813, ATP-synt_D, ATP synthase subunit D. This is a family
of subunit D form various ATP synthases including
V-type H+ transporting and Na+ dependent. Subunit D is
suggested to be an integral part of the catalytic
sector of the V-ATPase.
Length = 191
Score = 26.0 bits (58), Expect = 8.9
Identities = 16/34 (47%), Positives = 20/34 (58%), Gaps = 6/34 (17%)
Query: 50 RARRR---FQRG---LKRKPMALIKKLRKAKREA 77
R +RR QRG LK+K ALI++ R REA
Sbjct: 4 RLKRRLKLAQRGHKLLKKKRDALIREFRALLREA 37
>gnl|CDD|235529 PRK05601, PRK05601, DNA polymerase III subunit epsilon; Validated.
Length = 377
Score = 25.9 bits (57), Expect = 9.8
Identities = 10/34 (29%), Positives = 17/34 (50%)
Query: 50 RARRRFQRGLKRKPMALIKKLRKAKREAPPGEKP 83
R RRR + G KP+ ++ L A+R+ +
Sbjct: 167 RGRRRQRVGHIPKPVVIVDTLATARRQGVALDDI 200
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 0.138 0.398
Gapped
Lambda K H
0.267 0.0709 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,538,661
Number of extensions: 824805
Number of successful extensions: 1108
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1098
Number of HSP's successfully gapped: 43
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 (25.0 bits)