RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 031659
(155 letters)
>gnl|CDD|185442 PTZ00096, PTZ00096, 40S ribosomal protein S15; Provisional.
Length = 143
Score = 254 bits (652), Expect = 6e-89
Identities = 97/141 (68%), Positives = 117/141 (82%)
Query: 13 AAGQPKKRTFKKFSFRGVDLDALLDMSTDELAKLFSARARRRFQRGLKRKPMALIKKLRK 72
KKRTFKKF++RGV+L+ LL + +EL +LF AR RRR RG+KRK L+KKLRK
Sbjct: 3 YEQLKKKRTFKKFTYRGVELEKLLALPEEELVELFRARQRRRINRGIKRKHPTLLKKLRK 62
Query: 73 AKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEIKPEMIGHYLAEFSIS 132
AK+ PGEKP+ V+THLR+MIIVPEM+GS++GVYNGK FN VEIKPEMIGHYL EFSI+
Sbjct: 63 AKKATKPGEKPKAVKTHLRDMIIVPEMVGSVVGVYNGKQFNNVEIKPEMIGHYLGEFSIT 122
Query: 133 YKPVKHGRPGIGATHSSRFIP 153
YKPV+HG+PG+GATHSSRFIP
Sbjct: 123 YKPVRHGKPGVGATHSSRFIP 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 = 3e-76
Identities = 96/135 (71%), Positives = 110/135 (81%)
Query: 21 TFKKFSFRGVDLDALLDMSTDELAKLFSARARRRFQRGLKRKPMALIKKLRKAKREAPPG 80
TFK+F +RG L+ L DMS +ELAKL 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 = 179 bits (456), Expect = 5e-59
Identities = 73/133 (54%), Positives = 99/133 (74%), Gaps = 3/133 (2%)
Query: 23 KKFSFRGVDLDALLDMSTDELAKLFSARARRRFQRGLKRKPMALIKKLRKAKREAPPGEK 82
K+F++RG L+ L +MS +E A+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 = 129 bits (327), Expect = 3e-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 = 121 bits (307), Expect = 6e-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 = 60.2 bits (147), Expect = 7e-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 = 58.1 bits (141), Expect = 5e-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 = 0.071
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|179366 PRK02102, PRK02102, ornithine carbamoyltransferase; Validated.
Length = 331
Score = 31.4 bits (72), Expect = 0.15
Identities = 13/50 (26%), Positives = 24/50 (48%), Gaps = 7/50 (14%)
Query: 25 FSFRGVDLDALLDMSTDEL-------AKLFSARARRRFQRGLKRKPMALI 67
F+ +G LLD + +E+ +L +A+ + L+ K +ALI
Sbjct: 3 FNLKGRSFLKLLDFTPEEIEYLIDLSIELKAAKKAGIEHQYLEGKNIALI 52
>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 = 0.67
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|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 = 28.6 bits (64), Expect = 1.1
Identities = 14/43 (32%), Positives = 24/43 (55%)
Query: 35 LLDMSTDELAKLFSARARRRFQRGLKRKPMALIKKLRKAKREA 77
L +S D A+LF RR +R +++ +A +K+R+ RE
Sbjct: 95 PLPLSGDVQAELFPEVRHRRTERRRQKQDIAFTRKMRQEAREV 137
>gnl|CDD|223425 COG0348, NapH, Polyferredoxin [Energy production and conversion].
Length = 386
Score = 27.8 bits (62), Expect = 2.5
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|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 = 25.7 bits (57), Expect = 2.8
Identities = 11/34 (32%), Positives = 21/34 (61%), Gaps = 2/34 (5%)
Query: 30 VDLDALLDMSTDELAKL--FSARARRRFQRGLKR 61
+D DALL ++ ++L +L S R++ R ++R
Sbjct: 23 IDGDALLLLTDEDLKELGITSPGHRKKILRAIQR 56
>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 = 27.2 bits (61), Expect = 2.9
Identities = 23/62 (37%), Positives = 33/62 (53%), Gaps = 9/62 (14%)
Query: 33 DALLDMSTDELAKLFSARARRRFQRGL---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|237377 PRK13405, bchH, magnesium chelatase subunit H; Provisional.
Length = 1209
Score = 27.7 bits (62), Expect = 2.9
Identities = 21/57 (36%), Positives = 27/57 (47%), Gaps = 4/57 (7%)
Query: 28 RGVDLDALLD-MSTDELAKLFSARARRRFQRGLKRKPMALIKKLR-KAKREAPPGEK 82
R DA++ MS E+ KL R + G P+AL+KKLR K K GE
Sbjct: 93 RRDACDAMVGCMSAGEVVKL--TRMGKFDMSGPASGPLALLKKLRGKKKEGGSSGEG 147
>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 = 26.7 bits (60), Expect = 3.7
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|215059 PLN00111, PLN00111, accumulation of photosystem one; Provisional.
Length = 399
Score = 26.9 bits (60), Expect = 4.5
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|205721 pfam13543, KSR1-SAM, SAM like domain present in kinase suppressor
RAS 1.
Length = 129
Score = 26.2 bits (58), Expect = 4.9
Identities = 11/38 (28%), Positives = 17/38 (44%), Gaps = 5/38 (13%)
Query: 28 RGVDLDALLDMSTDELAKL-----FSARARRRFQRGLK 60
R + L+ LL+MS EL ++ S RR +
Sbjct: 89 RLLTLEQLLEMSDKELRQILSNVGASEEECRRLTAAMA 126
>gnl|CDD|179392 PRK02249, PRK02249, DNA primase large subunit; Validated.
Length = 343
Score = 26.9 bits (60), Expect = 5.5
Identities = 15/50 (30%), Positives = 20/50 (40%), Gaps = 3/50 (6%)
Query: 28 RGVDLDALLDMSTDELAKLFSARARRRFQRGLKRKPMALIKKLRKAKREA 77
GV LD LL A RAR R +R L + + L + + E
Sbjct: 21 AGVSLDDLLASDAYGSAV---ERARERVERALTGETVKEPSDLDRPEVEL 67
>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 = 26.6 bits (59), Expect = 6.4
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|184260 PRK13704, PRK13704, plasmid SOS inhibition protein A; Provisional.
Length = 240
Score = 26.6 bits (59), Expect = 6.5
Identities = 14/43 (32%), Positives = 21/43 (48%)
Query: 35 LLDMSTDELAKLFSARARRRFQRGLKRKPMALIKKLRKAKREA 77
L +S D A+LF + R +R R +A + R+ REA
Sbjct: 95 PLPLSGDVAARLFPSVRFRVRERRRHRSAIAFQRYSRQQAREA 137
>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 KRTFKKFSFRGVDLDALLDMSTDELAKLFSARARRRFQRGL 59
++ ++ +G+DL+ L + +EL + F A RR + GL
Sbjct: 305 EQALQQLQQQGIDLEEYLKDTEEELREEFREEAERRVKLGL 345
>gnl|CDD|217689 pfam03717, PBP_dimer, Penicillin-binding Protein dimerisation
domain. This domain is found at the N terminus of
Class B High Molecular Weight Penicillin-Binding
Proteins. Its function has not been precisely defined,
but is strongly implicated in PBP polymerisation. The
domain forms a largely disordered 'sugar tongs'
structure.
Length = 167
Score = 25.8 bits (57), Expect = 8.1
Identities = 10/44 (22%), Positives = 20/44 (45%), Gaps = 5/44 (11%)
Query: 32 LDALLDMSTDELAKLFSARARRRFQ-----RGLKRKPMALIKKL 70
L +L + +E+ K + + ++ R L + A IK+L
Sbjct: 43 LAKILGLDPEEILKKLKEKDAKSYEPVVLKRNLSPEEAARIKEL 86
>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 = 8.8
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
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 0.137 0.394
Gapped
Lambda K H
0.267 0.0798 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,486,814
Number of extensions: 818321
Number of successful extensions: 1064
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1054
Number of HSP's successfully gapped: 51
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 (21.8 bits)
S2: 55 (24.8 bits)