RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 022045
(303 letters)
>gnl|CDD|240267 PTZ00103, PTZ00103, 60S ribosomal protein L3; Provisional.
Length = 390
Score = 508 bits (1310), Expect = 0.0
Identities = 213/302 (70%), Positives = 251/302 (83%), Gaps = 18/302 (5%)
Query: 1 MSHRKFEHPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDV 60
MSHRKFEHPRHGSLGFLPRKR RHRG++++FPKDDP++P LTAF+GYKAGMTHIVRDV
Sbjct: 1 MSHRKFEHPRHGSLGFLPRKRCRRHRGRIRSFPKDDPTQPPHLTAFMGYKAGMTHIVRDV 60
Query: 61 EKPGSKLHKKETCEAVTIIETPPLVVVGVVGYVKTPRGLRSLCTVWAQHLNEEVRRRFYK 120
++PGSKLHKKE EAVTIIE PP+VVVG+VGY +TPRGLR+L TVWA HL++E RRRFYK
Sbjct: 61 DRPGSKLHKKEVVEAVTIIEAPPMVVVGIVGYRETPRGLRALTTVWAHHLSDEFRRRFYK 120
Query: 121 NWCKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIR--------------KKAHL 166
NW KSKKKAFTKY K T KK + L+++KKYC+VIR KKAH+
Sbjct: 121 NWYKSKKKAFTKYKKFAAT---KKAEERTLKRIKKYCSVIRVIAHTQPSKLPLGQKKAHV 177
Query: 167 MEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRL 226
MEIQVNGGSVA+KVDFA EK++P+D+VFQ++EMID+IGVTKG G+EGVV RWGVTRL
Sbjct: 178 MEIQVNGGSVAEKVDFAKSLLEKEVPVDSVFQQNEMIDVIGVTKGHGFEGVVKRWGVTRL 237
Query: 227 PRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQESHSAMTE 286
PRKTHRGLRKVACIGAWHPARV +TV RAGQ+GYHHRTE+NKKIY++G A + ++A TE
Sbjct: 238 PRKTHRGLRKVACIGAWHPARVQYTVPRAGQHGYHHRTELNKKIYRIGVAE-DPNNATTE 296
Query: 287 FD 288
D
Sbjct: 297 AD 298
>gnl|CDD|235260 PRK04231, rpl3p, 50S ribosomal protein L3P; Reviewed.
Length = 337
Score = 261 bits (670), Expect = 2e-86
Identities = 119/275 (43%), Positives = 170/275 (61%), Gaps = 6/275 (2%)
Query: 3 HRKFEHPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEK 62
RK PR GSL F PRKRA +++++P+ D +P +L F GYKAGMTH++ ++
Sbjct: 1 MRKIHRPRRGSLAFSPRKRAKSIVPRIRSWPEID-GEP-KLLGFAGYKAGMTHVIMIDDR 58
Query: 63 PGSKLHKKETCEAVTIIETPPLVVVGVVGYVKTPRGLRSLCTVWAQHLNEEVRRRFYKNW 122
P S KE VT++ETPP+ V + Y K P GL+ L VWA+ L++E+ RR
Sbjct: 59 PNSPTEGKEIFVPVTVLETPPMRVAAIRAYEKDPYGLKVLTEVWAEDLDKELERRITLPK 118
Query: 123 CKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCT-VIRKKAHLMEIQVNGGSVAQKVD 181
KKKAF K K E D++ + K T V +KK +MEI++ GGSV ++++
Sbjct: 119 KDEKKKAFEKLLKLLEEGK-IVDVRVIVHTQPKLVTGVPKKKPEIMEIRIGGGSVEERLE 177
Query: 182 FAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHR--GLRKVAC 239
+A K+I I VF++ +++D+I VTKGKG++GVV RWGV LPRK R G R +
Sbjct: 178 YAKELLGKEISISDVFKEGQLVDVIAVTKGKGFQGVVKRWGVKLLPRKHKRRGGSRHIGT 237
Query: 240 IGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLG 274
+G W+P+RV +TV +AGQ G+H RTE NK+I K+G
Sbjct: 238 LGPWNPSRVMWTVPQAGQMGFHQRTEYNKRILKIG 272
>gnl|CDD|234286 TIGR03626, L3_arch, archaeal ribosomal protein L3. This model
describes exclusively the archaeal class of ribosomal
protein L3. A separate model (TIGR03625) describes the
bacterial/organelle form, and both belong to Pfam family
pfam00297. Eukaryotic proteins are excluded from this
model [Protein synthesis, Ribosomal proteins: synthesis
and modification].
Length = 330
Score = 246 bits (630), Expect = 2e-80
Identities = 110/286 (38%), Positives = 162/286 (56%), Gaps = 29/286 (10%)
Query: 8 HPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKL 67
PR GSL F PRKRA R +++++P+ D +L F GYKAGMTH++ ++ S
Sbjct: 2 RPRRGSLAFSPRKRAKRIVPRIRSWPEVD--GEPKLQGFAGYKAGMTHVIMVDDRKNSPT 59
Query: 68 HKKETCEAVTIIETPPLVVVGVVGYVKTPRGLRSLCTVWAQHLNEEVRRRFYKNWCKSKK 127
KE VT++E PPL V + Y K P GL+ L VWA +L++E+ R+
Sbjct: 60 EGKEISVPVTVLEAPPLRVAAIRAYGKDPYGLKVLTEVWANNLDKELSRKI--------- 110
Query: 128 KAFTKYTKKYETDDGKKDIQAQLEKM------------KKYCTVIRKKAHLMEIQVNGGS 175
K Y+ ++ + I+ LE K V +KK +MEI++ GGS
Sbjct: 111 ----TLPKNYDVEEKLEKIEELLENDADDVRLIVHTQPKLVTGVPKKKPEIMEIRIGGGS 166
Query: 176 VAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKT--HRG 233
V ++ ++A K+I + VF++ +++D+I VTKGKG++GVV RWGV LPRK +G
Sbjct: 167 VEERFEYALSILGKEISVSDVFKEGQLVDVIAVTKGKGFQGVVKRWGVKLLPRKHKRRKG 226
Query: 234 LRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQE 279
R + +G W P+RV +TV +AGQ GYH RTE NK+I K+G+ E
Sbjct: 227 GRHIGTLGPWTPSRVRWTVPQAGQMGYHQRTEYNKRILKIGEDGDE 272
>gnl|CDD|144036 pfam00297, Ribosomal_L3, Ribosomal protein L3.
Length = 199
Score = 201 bits (512), Expect = 2e-64
Identities = 94/240 (39%), Positives = 112/240 (46%), Gaps = 77/240 (32%)
Query: 50 KAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVVVGVVGYVKTPRGLRSLCTVWAQH 109
KAGMTHI KK E VT+IE PP+VVV V Y
Sbjct: 1 KAGMTHIF---------TEKKGVLEPVTVIEVPPMVVVQVKTYE---------------- 35
Query: 110 LNEEVRRRFYKNWCKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIR-------- 161
ET+DG K IQ LE +KKY V R
Sbjct: 36 ----------------------------ETNDGYKAIQVGLESIKKYRVVKRVLGHTQKR 67
Query: 162 ---KKAHLMEIQVNGGSVAQKVDFAYGFFE--KQIPIDAVFQKDEMIDIIGVTKGKGYEG 216
KAH+ME +VNGG FE + I + VF++ E +D+ GVTKGKG++G
Sbjct: 68 GTPPKAHVMEFRVNGGE----------EFEPGQTIAVSDVFREGEYVDVTGVTKGKGFQG 117
Query: 217 VVTRWGVTRLPRKTHRG-LRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGK 275
V+ RWG RLPRK RG RK IGAWHP RV V AGQ G HHRTE N KIY++ +
Sbjct: 118 VMKRWGFKRLPRKHGRGYHRKPGSIGAWHPGRVFPGVKMAGQMGNHHRTEQNLKIYRIDQ 177
>gnl|CDD|223165 COG0087, RplC, Ribosomal protein L3 [Translation, ribosomal
structure and biogenesis].
Length = 218
Score = 150 bits (382), Expect = 1e-44
Identities = 70/235 (29%), Positives = 96/235 (40%), Gaps = 54/235 (22%)
Query: 43 LTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVVVGVVGYVKTPRGLRSL 102
+ FLGYK GMTH+ + + VT+IE PP VVV V Y G R
Sbjct: 1 MLGFLGYKVGMTHVFDE----------RGISVPVTVIEVPPNVVVQVKTYETD--GYR-A 47
Query: 103 CTVWAQHLNEEVRRRFYKNWCKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIRK 162
V A K K K + K ++
Sbjct: 48 VQVGAGD---------------RKAKRVNK------------PLVGHFAK-----AGVKP 75
Query: 163 KAHLMEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWG 222
K HL E +V GG VA+K + ++I +D VF++ E++D+ GVTKGKG++GV+ RWG
Sbjct: 76 KRHLAEFRVGGGDVAEKFEVG-----QEITVD-VFKEGELVDVTGVTKGKGFQGVMKRWG 129
Query: 223 VTRLPRKTHRGL--RKVACIG-AWHPARVSFTVARAGQNGYHHRTEMNKKIYKLG 274
P L R+ IG P RV AG G T N ++ K+
Sbjct: 130 FKGGPASHGSSLSHRRPGSIGQRQTPGRVFKGKKMAGHMGNERVTVQNLEVVKVD 184
>gnl|CDD|234564 PRK00001, rplC, 50S ribosomal protein L3; Validated.
Length = 210
Score = 44.3 bits (106), Expect = 2e-05
Identities = 20/57 (35%), Positives = 31/57 (54%), Gaps = 5/57 (8%)
Query: 196 VFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTH---RGLRKVACIGAWH-PARV 248
+F+ + +D+ G +KGKG+ GV+ R + P +H R R+ IGA P RV
Sbjct: 99 IFEAGQKVDVTGTSKGKGFAGVIKRHNFSGGP-ASHGNSRSHRRPGSIGARQTPGRV 154
>gnl|CDD|234285 TIGR03625, L3_bact, 50S ribosomal protein L3, bacterial. This
model describes bacterial (and mitochondrial and
chloroplast) class of ribosomal protein L3. A separate
model describes the archaeal form, where both belong to
Pfam family pfam00297. The name is phrased to meet the
needs of bacterial genome annotation. Organellar forms
typically will have transit peptides, N-terminal to the
region modeled here.
Length = 202
Score = 42.8 bits (102), Expect = 7e-05
Identities = 23/80 (28%), Positives = 36/80 (45%), Gaps = 7/80 (8%)
Query: 196 VFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTH---RGLRKVACIGA--WHPARVSF 250
+F+ + +D+ G +KGKG+ GV+ R + P +H + R IG P RV
Sbjct: 98 IFEAGQKVDVTGTSKGKGFAGVMKRHNFSGGP-ASHGNSKSHRAPGSIGQRQT-PGRVFK 155
Query: 251 TVARAGQNGYHHRTEMNKKI 270
AG G T N ++
Sbjct: 156 GKKMAGHMGNERVTVQNLEV 175
>gnl|CDD|177065 CHL00143, rpl3, ribosomal protein L3; Validated.
Length = 207
Score = 36.5 bits (85), Expect = 0.009
Identities = 42/157 (26%), Positives = 65/157 (41%), Gaps = 18/157 (11%)
Query: 123 CKSKKKAFTKYTKK---YETDDGKKDIQAQLEKMKKYCTVIRKKAHLMEIQVNGGSVAQK 179
+ K Y Y+ KK + QL ++K K +L E +V
Sbjct: 36 TQIKTLTTDGYNAIQIGYKQVSTKKLTKPQLGHLQKSNVPPLK--YLKEFRVKSSE---- 89
Query: 180 VDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTH--RGLRKV 237
+F G + + +DA F +++++ G + GKG+ G+ R +R P TH + R
Sbjct: 90 -EFEVG---QPLTVDA-FSVGQLVNVSGKSIGKGFAGLQKRHNFSRGP-MTHGSKNHRAP 143
Query: 238 ACIGA-WHPARVSFTVARAGQNGYHHRTEMNKKIYKL 273
IGA P RV AG+ G T N KI K+
Sbjct: 144 GSIGAGTTPGRVYPGKKMAGRLGNKKVTIKNLKILKV 180
>gnl|CDD|222906 PHA02606, 5.1, hypothetical protein; Provisional.
Length = 179
Score = 32.2 bits (73), Expect = 0.21
Identities = 18/80 (22%), Positives = 28/80 (35%), Gaps = 5/80 (6%)
Query: 40 PCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVVVGVV--GYVKTPR 97
P L Y+ + + ++ + G + E PP V + Y +T
Sbjct: 102 PQNLQKTFTYEVTLIYDYQEPSESGGSGSGSNSSEGAGETNPPPAPVRKTLTKVYTQTVV 161
Query: 98 GLRSLCTVWAQHLNEEVRRR 117
G S VWA L + V R
Sbjct: 162 GNWS---VWANQLRDYVYRG 178
>gnl|CDD|217492 pfam03321, GH3, GH3 auxin-responsive promoter.
Length = 513
Score = 31.9 bits (73), Expect = 0.48
Identities = 21/78 (26%), Positives = 32/78 (41%), Gaps = 12/78 (15%)
Query: 153 MKKYCTVIRKKAHLME----------IQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEM 202
K ++ E I ++ V+ + GFFE IP+D +D
Sbjct: 274 RPKLEKLLGGLPLYSETYAASEGFFGINLDPEDVSYTLMPNSGFFEF-IPVDEDGDEDPK 332
Query: 203 I-DIIGVTKGKGYEGVVT 219
I D++ V GK YE V+T
Sbjct: 333 IVDLVEVELGKNYELVIT 350
>gnl|CDD|193205 pfam12729, 4HB_MCP_1, Four helix bundle sensory module for signal
transduction. This family is a four helix bundle that
operates as a ubiquitous sensory module in prokaryotic
signal-transduction. The 4HB_MCP is always found between
two predicted transmembrane helices indicating that it
detects only extracellular signals. In many cases the
domain is associated with a cytoplasmic HAMP domain
suggesting that most proteins carrying the bundle might
share the mechanism of transmembrane signalling which is
well-characterized in E coli chemoreceptors.
Length = 181
Score = 30.3 bits (69), Expect = 0.91
Identities = 25/89 (28%), Positives = 41/89 (46%), Gaps = 15/89 (16%)
Query: 124 KSKKKAFTKYTKKYE----TDDGKKDIQAQLEKMKKYCTVIRKKAHLMEIQVNGGSVAQK 179
+ + K KKYE T++ KK E++K Y V K ++++ + A K
Sbjct: 85 EELRAEIDKLLKKYEKTILTEEEKKLFNEFKEQLKAYRKVRNK---VLDL-----AKAGK 136
Query: 180 VDFAYGFFEKQIP--IDAVFQK-DEMIDI 205
D AY + ++ DAV + DE+ID
Sbjct: 137 NDEAYALYLTELEPARDAVIEALDELIDY 165
>gnl|CDD|131251 TIGR02196, GlrX_YruB, Glutaredoxin-like protein, YruB-family. This
glutaredoxin-like protein family contains the conserved
CxxC motif and includes the Clostridium pasteurianum
protein YruB which has been cloned from a rubredoxin
operon. Somewhat related to NrdH, it is unknown whether
this protein actually interacts with
glutathione/glutathione reducatase, or, like NrdH, some
other reductant system.
Length = 74
Score = 28.1 bits (63), Expect = 1.1
Identities = 11/35 (31%), Positives = 16/35 (45%)
Query: 122 WCKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKY 156
CK K+ T +E D +KD A+ E +K
Sbjct: 12 PCKKAKEYLTSKGIAFEEIDVEKDSAAREEVLKVL 46
>gnl|CDD|218585 pfam05424, Duffy_binding, Duffy binding domain. This domain is
found in Plasmodium Duffy binding proteins. Plasmodium
vivax and Plasmodium knowlesi merozoites invade human
erythrocytes that express Duffy blood group surface
determinants. The Duffy receptor family is localised in
micronemes, an organelle found in all organisms of the
phylum Apicomplexa.
Length = 276
Score = 29.6 bits (67), Expect = 1.8
Identities = 12/38 (31%), Positives = 19/38 (50%)
Query: 119 YKNWCKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKY 156
YK W +KKK + K KKY+ + + + + KY
Sbjct: 235 YKKWIDNKKKEWDKQKKKYKKYKKRNNKKNYSDIKDKY 272
>gnl|CDD|214809 smart00762, Cog4, COG4 transport protein. This region is found in
yeast oligomeric golgi complex component 4 which is
involved in ER to Golgi and intra Golgi transport.
Length = 324
Score = 29.6 bits (67), Expect = 2.0
Identities = 25/120 (20%), Positives = 42/120 (35%), Gaps = 25/120 (20%)
Query: 106 WAQHLNEEVRRRFYKNWCKSKKKAFTKYTKKY----ETDDGKKDIQAQLEKMKKY-CTVI 160
+ L E + RF + T++ K + ++G LE KY C +I
Sbjct: 4 ARETLTELFKERFDEAVKAQDVPELTRFFKLFPLIGMEEEG-------LELYSKYICDII 56
Query: 161 RKKAHLMEIQVNGGSVAQKVDFAY-----GFFE--------KQIPIDAVFQKDEMIDIIG 207
KA + ++ G S + Y FE Q I+ + D M+ +I
Sbjct: 57 ADKARSLLNELAGASDDTRAAVFYADTLTHLFENVATIIEQHQPVIEKYYGPDGMLYVIT 116
>gnl|CDD|184998 PRK15038, PRK15038, autoinducer 2 import system permease LsrD;
Provisional.
Length = 330
Score = 29.4 bits (66), Expect = 2.1
Identities = 8/42 (19%), Positives = 23/42 (54%)
Query: 262 HRTEMNKKIYKLGKASQESHSAMTEFDRSVYLLSSLMGSFSS 303
HRT + ++ +G++ + + + +R++ L ++ G S+
Sbjct: 182 HRTHAGRNVFLIGQSPRVALYSAIPVNRTLCALYAMTGLASA 223
>gnl|CDD|219219 pfam06889, DUF1266, Protein of unknown function (DUF1266). This
family consists of several hypothetical bacterial
proteins of around 235 residues in length. Members of
this family seem to be found exclusively in the
Enterobacteria Salmonella typhimurium and Escherichia
coli. The function of this family is unknown.
Length = 171
Score = 28.1 bits (63), Expect = 3.4
Identities = 10/48 (20%), Positives = 20/48 (41%)
Query: 240 IGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQESHSAMTEF 287
I AW R +F GY E + + + +Q+S+ + ++
Sbjct: 78 ILAWDYGRAAFLARWGYLAGYISEEEAWDLLLRAARRAQQSYDSWEDY 125
>gnl|CDD|220222 pfam09403, FadA, Adhesion protein FadA. FadA (Fusobacterium
adhesin A) is an adhesin which forms two alpha helices.
Length = 126
Score = 28.0 bits (62), Expect = 3.5
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 108 QHLNEEVRRRFYKNWCKSKKKAFTKYTKKYETD-DGKKDIQAQLEKMKK 155
L EE + RF+K+ K K + +Y K E K+ ++ EK+++
Sbjct: 76 AKLKEESKTRFHKDEYKKLLKRYDEYLNKLEQKITDKEQQISEFEKIQE 124
>gnl|CDD|180676 PRK06739, PRK06739, pyruvate kinase; Validated.
Length = 352
Score = 28.8 bits (64), Expect = 3.6
Identities = 14/34 (41%), Positives = 22/34 (64%), Gaps = 2/34 (5%)
Query: 139 TDDGKKDIQAQLEKMKKY--CTVIRKKAHLMEIQ 170
T+ KKDIQ LE+ + C+ +RK +H+ EI+
Sbjct: 164 TEKDKKDIQFLLEEDVDFIACSFVRKPSHIKEIR 197
>gnl|CDD|234767 PRK00448, polC, DNA polymerase III PolC; Validated.
Length = 1437
Score = 28.3 bits (64), Expect = 6.0
Identities = 16/111 (14%), Positives = 36/111 (32%), Gaps = 7/111 (6%)
Query: 104 TVWAQHLNEEVRRRFYKNWCKSKKKA-----FTKYTKKYETDDGKKDIQAQLEKMKKYCT 158
+ + NE R K K F +E DD K++++ + ++
Sbjct: 125 KLIIKVNNEIERDHLKKKHLPKLIKQYEKFGFGILKIDFEIDDSKEELEKFEAQKEE--E 182
Query: 159 VIRKKAHLMEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVT 209
+ +E + +K + E + I K+E+ + +
Sbjct: 183 DEKLAKEALEAMKKLEAEKKKQSKNFDPKEGPVQIGKKIDKEEITPMKEIN 233
>gnl|CDD|233353 TIGR01311, glycerol_kin, glycerol kinase. This model describes
glycerol kinase, a member of the FGGY family of
carbohydrate kinases [Energy metabolism, Other].
Length = 493
Score = 28.0 bits (63), Expect = 6.4
Identities = 9/44 (20%), Positives = 19/44 (43%)
Query: 87 VGVVGYVKTPRGLRSLCTVWAQHLNEEVRRRFYKNWCKSKKKAF 130
VG ++ L + + ++EE R Y W ++ K++
Sbjct: 448 VGYWKSLEEIEALWRVEKTFEPEMDEEEREARYAGWKEAVKRSL 491
>gnl|CDD|215166 PLN02295, PLN02295, glycerol kinase.
Length = 512
Score = 28.1 bits (63), Expect = 6.6
Identities = 10/27 (37%), Positives = 18/27 (66%)
Query: 104 TVWAQHLNEEVRRRFYKNWCKSKKKAF 130
T + L+EE R + Y +WCK+ +++F
Sbjct: 479 TTFRPKLDEEERAKRYASWCKAVERSF 505
>gnl|CDD|191382 pfam05837, CENP-H, Centromere protein H (CENP-H). This family
consists of several eukaryotic centromere protein H
(CENP-H) sequences. Macromolecular
centromere-kinetochore complex plays a critical role in
sister chromatid separation, but its complete protein
composition as well as its precise dynamic function
during mitosis has not yet been clearly determined.
CENP-H contains a coiled-coil structure and a nuclear
localisation signal. CENP-H is specifically and
constitutively localised in kinetochores throughout the
cell cycle. CENP-H may play a role in kinetochore
organisation and function throughout the cell cycle.
This the C-terminus of the region, which is conserved
from fungi to humans.
Length = 106
Score = 26.5 bits (59), Expect = 7.8
Identities = 16/74 (21%), Positives = 29/74 (39%)
Query: 110 LNEEVRRRFYKNWCKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIRKKAHLMEI 169
+ E R K + TKK E+ +++ QLEK++ + K +M+
Sbjct: 20 SDLEKERLQLKQKNVELALELLELTKKKESWREDMELKEQLEKLEADLKKSKAKWEVMKN 79
Query: 170 QVNGGSVAQKVDFA 183
V V++A
Sbjct: 80 VFQALIVGSGVNWA 93
>gnl|CDD|226966 COG4607, CeuA, ABC-type enterochelin transport system, periplasmic
component [Inorganic ion transport and metabolism].
Length = 320
Score = 27.7 bits (62), Expect = 8.2
Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 7/53 (13%)
Query: 133 YTKKYETDDGKKDIQAQLEKMKKYCTVIRKKAHLMEIQVNGGSVAQKVDFAYG 185
+ K+ E + DI A + K+ K A + I VNGG ++ A+G
Sbjct: 166 FGKEEEAKELLADIDASIAAAKEKAAGKGKTA--LVILVNGGKIS-----AFG 211
>gnl|CDD|130261 TIGR01193, bacteriocin_ABC, ABC-type bacteriocin transporter. This
model describes ABC-type bacteriocin transporter. The
amino terminal domain (pfam03412) processes the
N-terminal leader peptide from the bacteriocin while
C-terminal domains resemble ABC transporter membrane
protein and ATP-binding cassette domain. In general,
bacteriocins are agents which are responsible for
killing or inhibiting the closely related species or
even different strains of the same species. Bacteriocins
are usually encoded by bacterial plasmids. Bacteriocins
are named after the species and hence in literature one
encounters various names e.g., leucocin from Leuconostic
geldium; pedicocin from Pedicoccus acidilactici; sakacin
from Lactobacillus sake etc [Protein fate, Protein and
peptide secretion and trafficking, Protein fate, Protein
modification and repair, Transport and binding proteins,
Other].
Length = 708
Score = 27.8 bits (62), Expect = 9.4
Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 2/55 (3%)
Query: 160 IRKKAHLMEIQVNGGSVAQKVDFAYGFFEKQIP-IDAVFQKDEMIDIIGVTKGKG 213
I KK +NG V V ++YG+ + I + + I+G++ G G
Sbjct: 459 INKKKRTELNNLNGDIVINDVSYSYGYGSNILSDISLTIKMNSKTTIVGMS-GSG 512
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
0.320 0.135 0.410
Gapped
Lambda K H
0.267 0.0723 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,480,772
Number of extensions: 1472162
Number of successful extensions: 1329
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1312
Number of HSP's successfully gapped: 39
Length of query: 303
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 207
Effective length of database: 6,679,618
Effective search space: 1382680926
Effective search space used: 1382680926
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: 59 (26.5 bits)