RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16437
(501 letters)
>gnl|CDD|224717 COG1804, CaiB, Predicted acyl-CoA transferases/carnitine
dehydratase [Energy production and conversion].
Length = 396
Score = 349 bits (897), Expect = e-117
Identities = 136/281 (48%), Positives = 183/281 (65%), Gaps = 5/281 (1%)
Query: 213 PSLPLSNVRILDLTRIIAGPFCTMLLADLGAEVIKVEQPVTGDECRKWGPPFLNNTELST 272
PL +R++DL ++AGPF LLADLGAEVIKVE+P GD+ R + P + S
Sbjct: 4 RKGPLEGLRVIDLAHVLAGPFAGQLLADLGAEVIKVERPGGGDDTRVFAP----VADGSA 59
Query: 273 YFTCVNRNKKSVCVDFKTPEGQQIIKDLAKQCDVLVENFVPGKLDRLNLGYKHLSEINSQ 332
YF +NR K+SV +D KT EG++I+ L DVL+ENF PG L+RL LGY+ L IN +
Sbjct: 60 YFLALNRGKRSVALDLKTEEGREILLRLVAGADVLIENFRPGVLERLGLGYEALRAINPR 119
Query: 333 LIYCSVTGFGSKGPYKDRPGYDIIAASIGGLLHITGHPDGPPCKVGIASIDLATGLYAHG 392
LIYCS++GFG GPY DRPGYD+IA + GL+ ITG PDGPP G+A DLA GLYA
Sbjct: 120 LIYCSISGFGQTGPYADRPGYDLIAQAEAGLMSITGRPDGPPVPAGVAIADLAGGLYAAI 179
Query: 393 AVMAALLHKYKTGKGQKIDCNLLSTQVSMLINVGANYLNAGIEGKRWGTSHANVVPHQVF 452
++AALLH+ +TG+GQ ID +L VS+L N YL G R G +H + P+ V+
Sbjct: 180 GILAALLHRERTGRGQHIDVAMLDAAVSLLANQLMTYLATGKLPLRPGGAHPAIAPYDVY 239
Query: 453 KTSNGY-VTIGTGSDKQYQDMCKVMNLQHLALDPRYLTGAL 492
+T++G V +G G+DK +Q +C+++ LA DPR+ T
Sbjct: 240 RTADGKLVALGAGNDKFWQALCELLGRPELADDPRFATNHA 280
Score = 121 bits (306), Expect = 2e-30
Identities = 46/139 (33%), Positives = 66/139 (47%), Gaps = 2/139 (1%)
Query: 1 MCKVMNLQHLALDPRYLTGALRVENRELLCKEIEAKTMEKTTEEWLLIFQGVSFPYAQVN 60
+C+++ LA DPR+ T RV NR+ L + A T EW + P A V
Sbjct: 260 LCELLGRPELADDPRFATNHARVANRDELDAILAAAFATNTAAEWAARLEAAGVPAAPVL 319
Query: 61 SISQVFADEHIQDIKLVKEISHEKYGDIKIVGPAVAYSLTQPEVRTPPPALGEHTDYVLK 120
++++ AD +Q LV E+ G + P +S V PPPALGEHT+ +L
Sbjct: 320 TVAEALADPQLQARGLVVEVEGP-GGTVPQPAPPPRFSGAPAGVMRPPPALGEHTEAILA 378
Query: 121 DLLNYDETTIAKLKEKKIL 139
+L Y E IA LK +
Sbjct: 379 ELG-YSEREIAALKATGAI 396
>gnl|CDD|217078 pfam02515, CoA_transf_3, CoA-transferase family III.
CoA-transferases are found in organisms from all lines
of descent. Most of these enzymes belong to two
well-known enzyme families, but recent work on unusual
biochemical pathways of anaerobic bacteria has revealed
the existence of a third family of CoA-transferases. The
members of this enzyme family differ in sequence and
reaction mechanism from CoA-transferases of the other
families. Currently known enzymes of the new family are
a formyl-CoA: oxalate CoA-transferase, a succinyl-CoA:
(R)-benzylsuccinate CoA-transferase, an
(E)-cinnamoyl-CoA: (R)-phenyllactate CoA-transferase,
and a butyrobetainyl-CoA: (R)-carnitine CoA-transferase.
In addition, a large number of proteins of unknown or
differently annotated function from Bacteria, Archaea
and Eukarya apparently belong to this enzyme family.
Properties and reaction mechanisms of the
CoA-transferases of family III are described and
compared to those of the previously known
CoA-transferases.
Length = 179
Score = 235 bits (601), Expect = 1e-75
Identities = 80/179 (44%), Positives = 118/179 (65%), Gaps = 1/179 (0%)
Query: 284 VCVDFKTPEGQQIIKDLAKQCDVLVENFVPGKLDRLNLGYKHLSEINSQLIYCSVTGFGS 343
V +D K+PEG+ +++ L DVL+ENF PG L+RL LGY+ L IN +LIY S++GFG
Sbjct: 1 VALDLKSPEGRALLRRLVADADVLIENFRPGVLERLGLGYEALRAINPRLIYVSISGFGQ 60
Query: 344 KGPYKDRPGYDIIAASIGGLLHITGHPDGP-PCKVGIASIDLATGLYAHGAVMAALLHKY 402
GPY DRPGYD++ ++ GL+ +TG PDG P + G D+A GLYA A++AALL +
Sbjct: 61 DGPYADRPGYDLVVQALSGLMSLTGEPDGGPPVRPGTPIADIAAGLYAAIAILAALLARE 120
Query: 403 KTGKGQKIDCNLLSTQVSMLINVGANYLNAGIEGKRWGTSHANVVPHQVFKTSNGYVTI 461
+TG+GQ+ID +LL +++L + YL G R G H P+ +++T++G+V I
Sbjct: 121 RTGRGQRIDVSLLEAALALLAPLLLLYLATGAVPPRAGNRHPAGAPYGLYRTADGWVAI 179
>gnl|CDD|183132 PRK11430, PRK11430, putative CoA-transferase; Provisional.
Length = 381
Score = 219 bits (560), Expect = 7e-67
Identities = 101/272 (37%), Positives = 158/272 (58%), Gaps = 3/272 (1%)
Query: 216 PLSNVRILDLTRIIAGPFCTMLLADLGAEVIKVEQPVTGDECRKWGPPFLNNTELSTYFT 275
P + ++D+T ++ GPF T LL ++GA VIKVE P GD+ R +GP +++ L Y++
Sbjct: 9 PFEGLLVIDMTHVLNGPFGTQLLCNMGARVIKVEPPGHGDDTRTFGP-YVDGQSL--YYS 65
Query: 276 CVNRNKKSVCVDFKTPEGQQIIKDLAKQCDVLVENFVPGKLDRLNLGYKHLSEINSQLIY 335
+N K+SV +D K + I ++ KQ DVL ENF PG +++L ++ L EIN +LIY
Sbjct: 66 FINHGKESVVLDLKNDHDKSIFINMLKQADVLAENFRPGTMEKLGFSWETLQEINPRLIY 125
Query: 336 CSVTGFGSKGPYKDRPGYDIIAASIGGLLHITGHPDGPPCKVGIASIDLATGLYAHGAVM 395
S +GFG GP KD P YD I ++ G++ TG+PD PP +VG + DL G+Y ++
Sbjct: 126 ASSSGFGHTGPLKDAPAYDTIIQAMSGIMMETGYPDAPPVRVGTSLADLCGGVYLFSGIV 185
Query: 396 AALLHKYKTGKGQKIDCNLLSTQVSMLINVGANYLNAGIEGKRWGTSHANVVPHQVFKTS 455
+AL + K+ +G +D + +S L + Y+ G +R G H + P VF T
Sbjct: 186 SALYGREKSQRGAHVDIAMFDATLSFLEHGLMAYIATGKSPQRLGNRHPYMAPFDVFDTQ 245
Query: 456 NGYVTIGTGSDKQYQDMCKVMNLQHLALDPRY 487
+ +TI G+DK + +C+ + L L DPR+
Sbjct: 246 DKPITICCGNDKLFSALCQALELTELVNDPRF 277
Score = 44.2 bits (104), Expect = 1e-04
Identities = 30/123 (24%), Positives = 53/123 (43%), Gaps = 6/123 (4%)
Query: 1 MCKVMNLQHLALDPRYLTGALRVENRELLCKEIEAKTMEKTTEEWLLIFQGVSFPYAQVN 60
+C+ + L L DPR+ + LRV+N+ +L + IE + E WL V P A +
Sbjct: 262 LCQALELTELVNDPRFSSNILRVQNQAILKQYIERTLKTQAAEVWLARIHEVGVPVAPLL 321
Query: 61 SISQVFADEHIQDIKLVKEISHEKYGDIKIVGPAVAYS-LTQPEVRTPPPALGEHTDYVL 119
S+++ Q ++ E G I + G + S P V L +H + +
Sbjct: 322 SVAEAINLPQTQARNMLIE-----AGGIMMPGNPIKISGCADPHVMPGAATLDQHGEQIR 376
Query: 120 KDL 122
++
Sbjct: 377 QEF 379
>gnl|CDD|180055 PRK05398, PRK05398, formyl-coenzyme A transferase; Provisional.
Length = 416
Score = 205 bits (523), Expect = 6e-61
Identities = 108/307 (35%), Positives = 155/307 (50%), Gaps = 42/307 (13%)
Query: 214 SLPLSNVRILDLTRIIAGPFCTMLLADLGAEVIKVEQPVTGDECRKWGPPFLNNTEL--- 270
+ PL +++LD T + +GP CT LLA GA+VIKVE+P GD R +L
Sbjct: 2 TKPLEGIKVLDFTHVQSGPSCTQLLAWFGADVIKVERPGVGDVTR---------NQLRDI 52
Query: 271 ----STYFTCVNRNKKSVCVDFKTPEGQQIIKDLAKQCDVLVENFVPGKLDRLNLGYKHL 326
S YFT +N NK+S+ +D KTPEG+++++ L ++ DVLVENF PG LDR+ ++ +
Sbjct: 53 PDVDSLYFTMLNSNKRSITLDTKTPEGKEVLEKLIREADVLVENFGPGALDRMGFTWERI 112
Query: 327 SEINSQLIYCSVTGFGSKGPYKDRPGYDIIAASIGGLLHITGHPDGPPCKVGIASIDLAT 386
EIN +LI S+ GFG PY+D Y+ +A GG TG DGPP G A D T
Sbjct: 113 QEINPRLIVASIKGFGPGSPYEDVKAYENVAQCAGGAASTTGFWDGPPTVSGAALGDSNT 172
Query: 387 GLYAHGAVMAALLHKYKTGKGQKIDC-------NL----LSTQVSMLINVG-----ANYL 430
G++ ++AALL + KTG+GQ++ NL L Q L ++G Y
Sbjct: 173 GMHLAIGILAALLQREKTGRGQRVTVSMQDAVLNLCRVKLRDQ-QRLDHLGYLEEYPQYP 231
Query: 431 NA--GIEGKRWGTSHANVVPHQVFKTS------NGYVTIGTGSDKQYQDMCKVMNLQHLA 482
N G R G + P + K N Y+ + ++ +CK +
Sbjct: 232 NGTFGDAVPRAGNASGGGQPGWILKCKGWETDPNAYIYF-IIQPQGWEPICKAIGKPEWI 290
Query: 483 LDPRYLT 489
DP Y T
Sbjct: 291 TDPAYAT 297
Score = 75.8 bits (187), Expect = 1e-14
Identities = 43/139 (30%), Positives = 62/139 (44%), Gaps = 2/139 (1%)
Query: 1 MCKVMNLQHLALDPRYLTGALRVENRELLCKEIEAKTMEKTTEEWLLIFQGVSFPYAQVN 60
+CK + DP Y T R + + EIE TM KT E + I P V
Sbjct: 280 ICKAIGKPEWITDPAYATPEARQPHLFDIFAEIEKWTMTKTKFEAVDILNAFDIPCGPVL 339
Query: 61 SISQVFADEHIQDIKLVKEISHEKYGDIKIVGPAVAYSLTQPEVRTPPPALGEHTDYVLK 120
S+ ++ D ++ + E+ H G VG + S + P+V P LGEHTD VL
Sbjct: 340 SMKEIAEDPSLRASGTIVEVDHPLRGKYLTVGSPIKLSDSPPDV-KRSPLLGEHTDEVLA 398
Query: 121 DLLNYDETTIAKLKEKKIL 139
+ L Y + IA LK+ +
Sbjct: 399 E-LGYSDDQIAALKQNGAI 416
>gnl|CDD|211800 TIGR03253, oxalate_frc, formyl-CoA transferase. This enzyme,
formyl-CoA transferase, transfers coenzyme A from
formyl-CoA to oxalate. It forms a pathway, together with
oxalyl-CoA decarboxylase, for oxalate degradation;
decarboxylation by the latter gene regenerates
formyl-CoA. The two enzymes typically are encoded by a
two-gene operon [Cellular processes, Detoxification].
Length = 415
Score = 186 bits (475), Expect = 5e-54
Identities = 101/297 (34%), Positives = 154/297 (51%), Gaps = 26/297 (8%)
Query: 216 PLSNVRILDLTRIIAGPFCTMLLADLGAEVIKVEQPVTGDECRKWGPPFLNNTELSTYFT 275
PL +++LD T + +GP CT +LA LGA+VIK+E+P GD R + L YFT
Sbjct: 3 PLDGIKVLDFTHVQSGPSCTQMLAWLGADVIKIERPGVGDITRGQLRDIPDVDSL--YFT 60
Query: 276 CVNRNKKSVCVDFKTPEGQQIIKDLAKQCDVLVENFVPGKLDRLNLGYKHLSEINSQLIY 335
+N NK+S+ ++ KTPEG++++++L K+ DV+VENF PG LDR+ ++++ EIN +LI
Sbjct: 61 MLNCNKRSITLNTKTPEGKEVLEELIKKADVMVENFGPGALDRMGFTWEYIQEINPRLIL 120
Query: 336 CSVTGFGSKGPYKDRPGYDIIAASIGGLLHITGHPDGPPCKVGIASIDLATGLYAHGAVM 395
S+ GFG PY++ Y+ +A + GG TG DGPP G A D TG++ ++
Sbjct: 121 ASIKGFGEGSPYENVKAYENVAQAAGGAASTTGFWDGPPLVSGAALGDSNTGMHLMIGIL 180
Query: 396 AALLHKYKTGKGQKIDC-------NLLSTQV---SMLINVG-----ANYLNA--GIEGKR 438
AAL + TG+GQ++ NL ++ L +G Y N G R
Sbjct: 181 AALYQREHTGRGQRVTVAMQDAVLNLCRVKLRDQQRLDRLGPLAEYPQYPNGAFGDAVPR 240
Query: 439 WGTSHANVVPHQVFKTS------NGYVTIGTGSDKQYQDMCKVMNLQHLALDPRYLT 489
G + P + K N YV T ++ +C ++ DP Y T
Sbjct: 241 GGNAGGGGQPGWILKCKGWETDPNAYVYF-TIQANNWEQICDMIGKPEWITDPAYAT 296
Score = 71.0 bits (174), Expect = 4e-13
Identities = 39/139 (28%), Positives = 57/139 (41%), Gaps = 2/139 (1%)
Query: 1 MCKVMNLQHLALDPRYLTGALRVENRELLCKEIEAKTMEKTTEEWLLIFQGVSFPYAQVN 60
+C ++ DP Y T R + IE T K E P V
Sbjct: 279 ICDMIGKPEWITDPAYATPEARQPKLNDIFAFIETYTATKDKFEVTEWLNQYGIPCGPVL 338
Query: 61 SISQVFADEHIQDIKLVKEISHEKYGDIKIVGPAVAYSLTQPEVRTPPPALGEHTDYVLK 120
S+ ++ D ++ + V E+ G VG S P++ P LGEHTD VLK
Sbjct: 339 SMKEIAEDPSLRAVGTVVEVDQPIRGKYLTVGAPFKLSDFPPDI-KRAPLLGEHTDEVLK 397
Query: 121 DLLNYDETTIAKLKEKKIL 139
+ L YD+ IA+LK ++
Sbjct: 398 E-LGYDDDEIAELKASGVI 415
>gnl|CDD|179589 PRK03525, PRK03525, crotonobetainyl-CoA:carnitine CoA-transferase;
Provisional.
Length = 405
Score = 101 bits (253), Expect = 3e-23
Identities = 73/269 (27%), Positives = 116/269 (43%), Gaps = 14/269 (5%)
Query: 216 PLSNVRILDLTRIIAGPFCTMLLADLGAEVIKVEQPVTGDECRKWGPPFLNNTELSTYFT 275
PL+ +R++ IAGPF + A+ GAEVI +E D R N +LS
Sbjct: 11 PLAGLRVVFSGIEIAGPFAGQMFAEWGAEVIWIENVAWADTIRVQP----NYPQLS---- 62
Query: 276 CVNRNKKSVCVDFKTPEGQQIIKDLAKQCDVLVENFVPGKLDRLNLGYKHLSEINSQLIY 335
RN ++ ++ EG++ L + D+ +E R + + L E N +L+
Sbjct: 63 --RRNLHALSLNIFKDEGREAFLKLMETTDIFIEASKGPAFARRGITDEVLWEHNPKLVI 120
Query: 336 CSVTGFGSKG--PYKDRPGYDIIAASIGGLLHITGHPDGPPCKVGIASIDLATGLYAHGA 393
++GFG G Y + P Y+ IA + G L G D P + D +GL A A
Sbjct: 121 AHLSGFGQYGTEEYTNLPAYNTIAQAFSGYLIQNGDVD-QPMPAFPYTADYFSGLTATTA 179
Query: 394 VMAALLHKYKTGKGQKIDCNLLSTQVSMLINVGANYLNAGIEGKRW-GTSHANVVPHQVF 452
+AAL +TGKG+ ID + + M +Y N G R ++
Sbjct: 180 ALAALHKARETGKGESIDIAMYEVMLRMGQYFMMDYFNGGEMCPRMTKGKDPYYAGCGLY 239
Query: 453 KTSNGYVTIGTGSDKQYQDMCKVMNLQHL 481
K ++GY+ + Q ++ K + L HL
Sbjct: 240 KCADGYIVMELVGITQIKECFKDIGLAHL 268
>gnl|CDD|211976 TIGR04253, mesacon_CoA_iso, mesaconyl-CoA isomerase. Members of
this protein family belong by homology to the family of
CoA transferases. However, the characterized member from
Chloroflexus aurantiacus appears to perform an
intramolecular transfer, making it an isomerase. The
enzyme converts mesaconyl-C1-CoA to mesaconyl-C4-CoA as
part of the bicyclic 3-hydroxyproprionate pathway for
carbon fixation.
Length = 403
Score = 68.1 bits (166), Expect = 2e-12
Identities = 57/219 (26%), Positives = 101/219 (46%), Gaps = 24/219 (10%)
Query: 217 LSNVRILDLTRIIAGPFCTMLLADLGAEVIKVEQPVTGDECRKWGPPFLNNTELSTYFTC 276
L +R+++ + +A P M LA LGA+VI+ + G + ++W P + + S ++
Sbjct: 3 LHGLRVVEGSAFVAAPLGGMTLAQLGADVIRFDPIGGGLDYKRW--PLTLDGKHSLFWAG 60
Query: 277 VNRNKKSVCVDFKTPEGQQIIKDL----AKQCDVLVENFVPGKLDRLNLGYKHLSEINSQ 332
+N+ K+S+ +D + P GQ+++ L + + NF P + L Y L +
Sbjct: 61 LNKGKRSIAIDIRHPRGQELLTQLICAPGDHAGLFITNF-PA---KGWLAYDALKAHRAD 116
Query: 333 LIYCSVTGF---GSKGPYKDRPGYDIIAASIGGLLHITGHPDGPPCKVG--IASIDLATG 387
LI ++TG GS+ Y P GL +TG P P V + D +G
Sbjct: 117 LIMVNLTGRRDGGSEVDYTLNPQL--------GLPFMTG-PTSSPDVVNHVFPAWDFISG 167
Query: 388 LYAHGAVMAALLHKYKTGKGQKIDCNLLSTQVSMLINVG 426
++AA H+ TG+GQ + L ++M+ + G
Sbjct: 168 QMIALGLLAAERHRRLTGEGQLVKIALKDVALAMIGHFG 206
Score = 35.7 bits (82), Expect = 0.052
Identities = 14/34 (41%), Positives = 20/34 (58%)
Query: 107 PPPALGEHTDYVLKDLLNYDETTIAKLKEKKILG 140
P P LGEHTD +L D+L E + +L + I+
Sbjct: 368 PAPRLGEHTDEILLDILGLSEAEVGRLHDAGIVA 401
>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742).
This is a family of fungal proteins of unknown function.
Length = 182
Score = 43.5 bits (103), Expect = 7e-05
Identities = 34/103 (33%), Positives = 47/103 (45%), Gaps = 8/103 (7%)
Query: 127 ETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNS 186
E T AK K+K++ IE++ K + + KKK KKKK K K KK KK DK+
Sbjct: 56 EYTEAKKKKKELAEEIEKVKKEYEEKQKWKWKKKKSKKKKDKDKDKKDDKKD----DKSE 111
Query: 187 INDENENKISLYENFYSLDLALSSENPSLPLSNVRILDLTRII 229
DE E + L + L + S +L R L + I
Sbjct: 112 KKDEKEAEDKLED----LTKSYSETLSTLSELKPRKYALHKDI 150
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 44.2 bits (105), Expect = 1e-04
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 7/56 (12%)
Query: 132 KLKEKKILGL-------IERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNI 180
LK + I L E+ T ++A+KK+K+K+K K KK+ + KNI
Sbjct: 367 PLKARVIDELRPKTKAPSEKKTGKPSKKVLAKRAEKKEKEKEKPKVKKRHRDTKNI 422
Score = 39.5 bits (93), Expect = 0.004
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKK 178
+K K+K+K K KK+ + K K
Sbjct: 402 KKEKEKEKPKVKKRHRDTKNIGK 424
Score = 39.2 bits (92), Expect = 0.005
Identities = 15/62 (24%), Positives = 23/62 (37%), Gaps = 14/62 (22%)
Query: 137 KILGLIERLT--------------KNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISV 182
+LG IER K P + KK K+ +KK+K+K+K +
Sbjct: 355 LLLGKIERYIEEPLKARVIDELRPKTKAPSEKKTGKPSKKVLAKRAEKKEKEKEKPKVKK 414
Query: 183 DK 184
Sbjct: 415 RH 416
Score = 39.2 bits (92), Expect = 0.005
Identities = 15/58 (25%), Positives = 21/58 (36%), Gaps = 18/58 (31%)
Query: 129 TIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNS 186
+AK EKK EK K+K K KK+ + K K++ S
Sbjct: 395 VLAKRAEKK------------------EKEKEKPKVKKRHRDTKNIGKRRKPSGTSEE 434
>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168). This
family consists of several hypothetical eukaryotic
proteins of unknown function.
Length = 142
Score = 42.0 bits (99), Expect = 1e-04
Identities = 17/40 (42%), Positives = 24/40 (60%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENEN 193
T +K K++KKK+KKKKKKK KK + S + E +
Sbjct: 83 TAKKRAKRQKKKQKKKKKKKAKKGNKKEEKEGSKSSEESS 122
Score = 38.9 bits (91), Expect = 0.001
Identities = 17/40 (42%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
R K +KKK+KKKKKKK KK KK+ S + ++ +
Sbjct: 87 RAKRQKKKQKKKKKKKAKKGNKKEE-KEGSKSSEESSDEE 125
Score = 37.7 bits (88), Expect = 0.003
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 6/49 (12%)
Query: 154 TREKAKKK------KKKKKKKKKKKKKKKKKNISVDKNSINDENENKIS 196
RE+ K+K KK+ K++KKK+KKKKKK E
Sbjct: 71 KREEKKRKDEEKTAKKRAKRQKKKQKKKKKKKAKKGNKKEEKEGSKSSE 119
Score = 36.9 bits (86), Expect = 0.007
Identities = 18/40 (45%), Positives = 27/40 (67%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
R+K K+KKKKKKK KK KK++K+ + S ++E E +
Sbjct: 90 RQKKKQKKKKKKKAKKGNKKEEKEGSKSSEESSDEEEEGE 129
>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional.
Length = 135
Score = 41.6 bits (98), Expect = 1e-04
Identities = 16/32 (50%), Positives = 21/32 (65%)
Query: 153 CTREKAKKKKKKKKKKKKKKKKKKKKNISVDK 184
++ K+K K+KK+KKKKKKKKKKK
Sbjct: 100 IVKQVLKEKAKQKKQKKKKKKKKKKKTSKKAA 131
Score = 37.4 bits (87), Expect = 0.004
Identities = 16/30 (53%), Positives = 21/30 (70%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDK 184
+ +K K+KK+KKKKKKKKKKK + K
Sbjct: 103 QVLKEKAKQKKQKKKKKKKKKKKTSKKAAK 132
Score = 37.4 bits (87), Expect = 0.004
Identities = 17/24 (70%), Positives = 19/24 (79%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
++K KKKKKKKKKKK KK KKK
Sbjct: 111 QKKQKKKKKKKKKKKTSKKAAKKK 134
Score = 36.2 bits (84), Expect = 0.009
Identities = 16/25 (64%), Positives = 19/25 (76%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKN 179
++K +KKKKKKKKKKK KK KK
Sbjct: 110 KQKKQKKKKKKKKKKKTSKKAAKKK 134
Score = 34.7 bits (80), Expect = 0.032
Identities = 16/25 (64%), Positives = 19/25 (76%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKK 178
+++ KKKKKKKKKK KK KKKK
Sbjct: 111 QKKQKKKKKKKKKKKTSKKAAKKKK 135
Score = 29.3 bits (66), Expect = 2.0
Identities = 13/23 (56%), Positives = 17/23 (73%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKN 179
K K+ K+K K+KK+KKKKKK
Sbjct: 99 KIVKQVLKEKAKQKKQKKKKKKK 121
>gnl|CDD|219901 pfam08555, DUF1754, Eukaryotic family of unknown function
(DUF1754). This is a eukaryotic protein family of
unknown function.
Length = 90
Score = 38.9 bits (91), Expect = 5e-04
Identities = 16/55 (29%), Positives = 22/55 (40%)
Query: 161 KKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLYENFYSLDLALSSENPSL 215
K K KK KKKKKKKKK + + ++ E + S E+
Sbjct: 11 KLKGKKIDVKKKKKKKKKKNKSKEEVVTEKEEEEKSSAESDLKEGEEDEDNEKIE 65
Score = 38.2 bits (89), Expect = 8e-04
Identities = 19/59 (32%), Positives = 23/59 (38%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLYENFYSLDLALSSENPSL 215
K K KK KKKKKKKKKK K V +E + S + + E
Sbjct: 11 KLKGKKIDVKKKKKKKKKKNKSKEEVVTEKEEEEKSSAESDLKEGEEDEDNEKIEQEED 69
Score = 33.5 bits (77), Expect = 0.036
Identities = 14/39 (35%), Positives = 22/39 (56%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
+ KKKKKKKKK K K++ +K ++ +D E +
Sbjct: 18 DVKKKKKKKKKKNKSKEEVVTEKEEEEKSSAESDLKEGE 56
Score = 31.6 bits (72), Expect = 0.16
Identities = 14/41 (34%), Positives = 20/41 (48%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKIS 196
+K KKKKKKK K K++ +K++ S E E
Sbjct: 20 KKKKKKKKKKNKSKEEVVTEKEEEEKSSAESDLKEGEEDED 60
>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein
complex aNOP56 subunit; Provisional.
Length = 414
Score = 41.9 bits (99), Expect = 6e-04
Identities = 21/52 (40%), Positives = 31/52 (59%), Gaps = 8/52 (15%)
Query: 132 KLKEKKILGLIERL----TKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKN 179
+LKE+ L +R+ K P + + KK +K+KKKKK+KKK KK+K
Sbjct: 363 ELKEE----LNKRIEEIKEKYPKPPKKKREEKKPQKRKKKKKRKKKGKKRKK 410
Score = 38.8 bits (91), Expect = 0.005
Identities = 14/24 (58%), Positives = 20/24 (83%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
+ + +KKKKK+KKK KK+KKK +K
Sbjct: 391 KPQKRKKKKKRKKKGKKRKKKGRK 414
Score = 38.0 bits (89), Expect = 0.010
Identities = 15/24 (62%), Positives = 20/24 (83%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
+K +K+KKKKK+KKK KK+KKK
Sbjct: 389 EKKPQKRKKKKKRKKKGKKRKKKG 412
>gnl|CDD|220252 pfam09468, RNase_H2-Ydr279, Ydr279p protein family (RNase H2
complex component). RNases H are enzymes that
specifically hydrolyse RNA when annealed to a
complementary DNA and are present in all living
organisms. In yeast RNase H2 is composed of a complex of
three proteins (Rnh2Ap, Ydr279p and Ylr154p), this
family represents the homologues of Ydr279p. It is not
known whether non yeast proteins in this family fulfil
the same function.
Length = 287
Score = 40.8 bits (96), Expect = 0.001
Identities = 19/85 (22%), Positives = 34/85 (40%), Gaps = 5/85 (5%)
Query: 107 PPPALGEHTDYVLKDLLNYDETTIA--KLKEKKILGLIERLTKNADPVCTREKAKKKKKK 164
PP E +L + + K K+++ +E + K+K++ KK
Sbjct: 204 PPDLYKELLKSLLIPEFKPLDKYLKESKKKKRETEEDVE---AAESRAEKKRKSKEEIKK 260
Query: 165 KKKKKKKKKKKKKKNISVDKNSIND 189
KK K+ K K KK ++ I+
Sbjct: 261 KKPKESKGVKALKKVVAKGMKKIDS 285
Score = 28.8 bits (65), Expect = 7.0
Identities = 18/78 (23%), Positives = 33/78 (42%), Gaps = 1/78 (1%)
Query: 119 LKDLLNYDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
K+LL K +K + ++ + + V E + +KK+K K++ KKKK K+
Sbjct: 208 YKELLKSLLIPEFKPLDKYLKESKKKKRETEEDVEAAES-RAEKKRKSKEEIKKKKPKES 266
Query: 179 NISVDKNSINDENENKIS 196
+ + KI
Sbjct: 267 KGVKALKKVVAKGMKKID 284
>gnl|CDD|219564 pfam07771, TSGP1, Tick salivary peptide group 1. This contains a
group of peptides derived from a salivary gland cDNA
library of the tick Ixodes scapularis. Also present are
peptides from a related tick species, Ixodes ricinus.
They are characterized by a putative signal peptide
indicative of secretion and conserved cysteine residues.
Length = 120
Score = 37.2 bits (86), Expect = 0.003
Identities = 16/24 (66%), Positives = 16/24 (66%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
EK KKKKKK KK KK KK KK
Sbjct: 97 TEKPKKKKKKSKKTKKPKKSSKKD 120
Score = 33.3 bits (76), Expect = 0.068
Identities = 14/20 (70%), Positives = 15/20 (75%)
Query: 160 KKKKKKKKKKKKKKKKKKKN 179
KKKKKK KK KK KK KK+
Sbjct: 101 KKKKKKSKKTKKPKKSSKKD 120
Score = 32.9 bits (75), Expect = 0.11
Identities = 14/26 (53%), Positives = 15/26 (57%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKN 179
E +K KKKKKK KK KK KK
Sbjct: 93 PPEPTEKPKKKKKKSKKTKKPKKSSK 118
Score = 32.5 bits (74), Expect = 0.13
Identities = 13/29 (44%), Positives = 15/29 (51%)
Query: 148 NADPVCTREKAKKKKKKKKKKKKKKKKKK 176
+ + K KKKK KK KK KK KK
Sbjct: 92 HPPEPTEKPKKKKKKSKKTKKPKKSSKKD 120
Score = 32.2 bits (73), Expect = 0.20
Identities = 14/29 (48%), Positives = 16/29 (55%)
Query: 150 DPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
P + +K KKKKKK KK KK KK
Sbjct: 88 HPDDHPPEPTEKPKKKKKKSKKTKKPKKS 116
Score = 30.2 bits (68), Expect = 0.95
Identities = 14/22 (63%), Positives = 15/22 (68%)
Query: 162 KKKKKKKKKKKKKKKKKNISVD 183
K KKKKKK KK KK KK+ D
Sbjct: 99 KPKKKKKKSKKTKKPKKSSKKD 120
>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit
RPA34.5. This is a family of proteins conserved from
yeasts to human. Subunit A34.5 of RNA polymerase I is a
non-essential subunit which is thought to help Pol I
overcome topological constraints imposed on ribosomal
DNA during the process of transcription.
Length = 193
Score = 37.8 bits (88), Expect = 0.005
Identities = 16/38 (42%), Positives = 24/38 (63%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
K KKKKK+ KK+KK+KK KK+K + + + + K
Sbjct: 155 KEKKKKKEVKKEKKEKKDKKEKMVEPKGSKKKKKKKKK 192
Score = 36.2 bits (84), Expect = 0.016
Identities = 18/40 (45%), Positives = 25/40 (62%)
Query: 147 KNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNS 186
+ V EK +KKKKK+ KK+KK+KK KK+ + K S
Sbjct: 144 EKEAEVEEEEKKEKKKKKEVKKEKKEKKDKKEKMVEPKGS 183
Score = 34.7 bits (80), Expect = 0.063
Identities = 24/57 (42%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 126 DETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKK----KKKKKKKKKKKKK 178
ETT KE ++ ++ K V +K KK KK+K K KKKKKKKKKK
Sbjct: 137 KETTAKVEKEAEVEEEEKKEKKKKKEVKKEKKEKKDKKEKMVEPKGSKKKKKKKKKK 193
Score = 32.0 bits (73), Expect = 0.43
Identities = 13/51 (25%), Positives = 26/51 (50%)
Query: 134 KEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDK 184
+++ + + + ++K K+ KK+KK+KK KK+K + S K
Sbjct: 136 EKETTAKVEKEAEVEEEEKKEKKKKKEVKKEKKEKKDKKEKMVEPKGSKKK 186
Score = 31.6 bits (72), Expect = 0.66
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKNS 186
++K KK+KK+KK KK+K + K + K
Sbjct: 159 KKKEVKKEKKEKKDKKEKMVEPKGSKKKKKKK 190
Score = 28.1 bits (63), Expect = 7.2
Identities = 9/36 (25%), Positives = 22/36 (61%)
Query: 149 ADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDK 184
++ + ++ K +K+ + ++++KK+KKK V K
Sbjct: 130 SESETSEKETTAKVEKEAEVEEEEKKEKKKKKEVKK 165
>gnl|CDD|220237 pfam09428, DUF2011, Fungal protein of unknown function (DUF2011).
This is a family of fungal proteins whose function is
unknown.
Length = 130
Score = 36.9 bits (86), Expect = 0.006
Identities = 18/71 (25%), Positives = 37/71 (52%), Gaps = 6/71 (8%)
Query: 111 LGEHTDYVLKDLLNYDETTIAKLK--EKKILGLIERLTKNADPVCTREKAKKKKKKKKKK 168
L +H V K+LL E + + +K+ + L R + R + +K+ +K ++K
Sbjct: 64 LKKHNAKVEKELLREKEKKKKRKRPGKKRRIALRLRRERTK----ERAEKEKRTRKNREK 119
Query: 169 KKKKKKKKKKN 179
K K+++K+K+
Sbjct: 120 KFKRRQKEKEK 130
Score = 31.5 bits (72), Expect = 0.38
Identities = 13/46 (28%), Positives = 27/46 (58%)
Query: 135 EKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNI 180
EK++L E+ K P R A + ++++ K++ +K+K+ +KN
Sbjct: 72 EKELLREKEKKKKRKRPGKKRRIALRLRRERTKERAEKEKRTRKNR 117
Score = 28.4 bits (64), Expect = 4.7
Identities = 5/24 (20%), Positives = 16/24 (66%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNI 180
+++ K++ +K+K+ +K ++K
Sbjct: 98 LRRERTKERAEKEKRTRKNREKKF 121
>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19.
Med19 represents a family of conserved proteins which
are members of the multi-protein co-activator Mediator
complex. Mediator is required for activation of RNA
polymerase II transcription by DNA binding
transactivators.
Length = 178
Score = 36.7 bits (85), Expect = 0.010
Identities = 19/34 (55%), Positives = 23/34 (67%), Gaps = 4/34 (11%)
Query: 154 TREKAKKKKK----KKKKKKKKKKKKKKKNISVD 183
EK KKKK K++KKKKK+KKKKKK S +
Sbjct: 139 GHEKKHKKKKHEDDKERKKKKKEKKKKKKRHSPE 172
Score = 32.1 bits (73), Expect = 0.41
Identities = 17/31 (54%), Positives = 19/31 (61%), Gaps = 7/31 (22%)
Query: 156 EKAKKKKKKKKK-------KKKKKKKKKKKN 179
K +KK KKKK KKKKK+KKKKK
Sbjct: 137 LKGHEKKHKKKKHEDDKERKKKKKEKKKKKK 167
>gnl|CDD|203848 pfam08079, Ribosomal_L30_N, Ribosomal L30 N-terminal domain. This
presumed domain is found at the N-terminus of Ribosomal
L30 proteins and has been termed RL30NT or NUC018.
Length = 71
Score = 34.5 bits (80), Expect = 0.010
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNI 180
EK + K+ KK+ KK +KKK+K I
Sbjct: 9 NEKLRAKRAKKRAAKKAARKKKRKLI 34
Score = 31.8 bits (73), Expect = 0.096
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
R K KK+ KK +KKK+K K
Sbjct: 13 RAKRAKKRAAKKAARKKKRKLIFK 36
Score = 31.4 bits (72), Expect = 0.15
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNI 180
+ K+ KK+ KK +KKK+K
Sbjct: 10 EKLRAKRAKKRAAKKAARKKKRKLIF 35
Score = 29.9 bits (68), Expect = 0.49
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKK 178
++AKK+ KK +KKK+K K+
Sbjct: 15 KRAKKRAAKKAARKKKRKLIFKR 37
Score = 29.5 bits (67), Expect = 0.61
Identities = 9/26 (34%), Positives = 16/26 (61%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNI 180
R + + K+ KK+ KK +KKK+ +
Sbjct: 8 RNEKLRAKRAKKRAAKKAARKKKRKL 33
Score = 28.7 bits (65), Expect = 1.2
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNI 180
K K+ +K + K+ KK+ KK
Sbjct: 5 KRKRNEKLRAKRAKKRAAKKAARK 28
Score = 28.3 bits (64), Expect = 1.7
Identities = 9/25 (36%), Positives = 16/25 (64%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKN 179
R++ +K + K+ KK+ KK +KK
Sbjct: 6 RKRNEKLRAKRAKKRAAKKAARKKK 30
Score = 27.2 bits (61), Expect = 3.8
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 155 REKAKKKKKKKKKKKKKKKKKK 176
R K + KK +KKK+K K+
Sbjct: 16 RAKKRAAKKAARKKKRKLIFKR 37
Score = 27.2 bits (61), Expect = 4.1
Identities = 8/24 (33%), Positives = 14/24 (58%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
+ K +K + K+ KK+ KK +K
Sbjct: 5 KRKRNEKLRAKRAKKRAAKKAARK 28
Score = 27.2 bits (61), Expect = 4.1
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
+K KK +KKK+K K+ +K
Sbjct: 17 AKKRAAKKAARKKKRKLIFKRAEK 40
Score = 27.2 bits (61), Expect = 4.3
Identities = 9/34 (26%), Positives = 17/34 (50%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSI 187
+ K +K+ +K + K+ KK+ KK + I
Sbjct: 1 SLLKKRKRNEKLRAKRAKKRAAKKAARKKKRKLI 34
>gnl|CDD|182101 PRK09835, PRK09835, sensor kinase CusS; Provisional.
Length = 482
Score = 37.8 bits (88), Expect = 0.012
Identities = 28/100 (28%), Positives = 39/100 (39%), Gaps = 29/100 (29%)
Query: 232 PFCTMLLADLGAEVIKV---------EQPVT----GDECRKWGPPFLNNTELSTYFTCVN 278
P ML DL EV KV E+ V GD C+ G P + +S +
Sbjct: 331 PEKKML--DLADEVGKVFDFFEAWAEERGVELRFVGDPCQVAGDPLMLRRAISNLLSNAL 388
Query: 279 RNKKSVCVDFKTPEGQQI---IKDLAKQCDVLVENFVPGK 315
R TP G+ I +++ Q ++VEN PG
Sbjct: 389 RY---------TPAGEAITVRCQEVDHQVQLVVEN--PGT 417
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 37.6 bits (88), Expect = 0.013
Identities = 22/101 (21%), Positives = 42/101 (41%), Gaps = 22/101 (21%)
Query: 94 AVAYSLTQPEVRTPPPALGEHTDYVLKDLLNYDETTIAKLKEKKILGLIERLTKNADPVC 153
A LT+ E+ +++ A K KKI+ E+ +
Sbjct: 389 AAFLELTEEEI-----------EFLTGS-------KKATKKIKKIVEKAEKKREEE---- 426
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
+EK KK KKK+++++++K+KK ++ E E +
Sbjct: 427 KKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKE 467
Score = 34.5 bits (80), Expect = 0.11
Identities = 15/43 (34%), Positives = 24/43 (55%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKIS 196
EKA+KK++++KK+KKKK KK ++ + E K
Sbjct: 415 IVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEE 457
Score = 30.3 bits (69), Expect = 2.6
Identities = 16/48 (33%), Positives = 26/48 (54%)
Query: 152 VCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLYE 199
V EK ++++KK+KKKK KKK++ +K +E E + E
Sbjct: 416 VEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAE 463
Score = 30.3 bits (69), Expect = 2.7
Identities = 22/84 (26%), Positives = 37/84 (44%), Gaps = 7/84 (8%)
Query: 117 YVLKDLLNYDETTIAKLKEKKILGL----IERLTKNADPVCTREKAKKKKKKKKKKKKKK 172
L + ++ A+L L L IE LT + + K +K +KK++++KK
Sbjct: 372 PFLSIIFKHNPELAARLA--AFLELTEEEIEFLTGSKKAT-KKIKKIVEKAEKKREEEKK 428
Query: 173 KKKKKKNISVDKNSINDENENKIS 196
+KKKK K +E + K
Sbjct: 429 EKKKKAFAGKKKEEEEEEEKEKKE 452
>gnl|CDD|220231 pfam09420, Nop16, Ribosome biogenesis protein Nop16. Nop16 is a
protein involved in ribosome biogenesis.
Length = 173
Score = 36.3 bits (84), Expect = 0.015
Identities = 17/54 (31%), Positives = 31/54 (57%), Gaps = 1/54 (1%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDEN-ENKISLYENFYSLDLA 207
++K + K +K+ K+K +KK I++ N I +N + K +L +N+ L LA
Sbjct: 3 KKKKNRSSNYKVNRKRLKRKDRKKKINIIGNPIIAKNWDKKKTLAQNYKRLGLA 56
>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated.
Length = 859
Score = 37.9 bits (89), Expect = 0.015
Identities = 19/97 (19%), Positives = 38/97 (39%), Gaps = 18/97 (18%)
Query: 105 RTPPPALGEHTD---YVLKD-----LLNYDET--TIAKLKE------KKILGLIERLTKN 148
P P LG +VL+D + + + T+ K +E ++ L L+ +
Sbjct: 761 PVPLPELGCPKSGAPFVLRDGRYGPYVKHGKANATLPKGRETRAPTVEEALELLAEKPEK 820
Query: 149 ADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKN 185
+ K KK K +K K++ ++ +K+
Sbjct: 821 LRY--LADAPAKDPAGKKAAVKFSRKTKQQYVASEKD 855
>gnl|CDD|219621 pfam07890, Rrp15p, Rrp15p. Rrp15p is required for the formation of
60S ribosomal subunits.
Length = 132
Score = 35.4 bits (82), Expect = 0.017
Identities = 17/42 (40%), Positives = 24/42 (57%)
Query: 137 KILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
KIL +K DP+ +R K K KKK K +K +KK K++
Sbjct: 8 KILASKLPASKRKDPILSRSKKLLKAKKKLKSEKLEKKAKRQ 49
>gnl|CDD|219868 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal. This
domain is found to the N-terminus of bacterial signal
peptidases of the S49 family (pfam01343).
Length = 154
Score = 35.2 bits (82), Expect = 0.023
Identities = 13/25 (52%), Positives = 18/25 (72%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKN 179
EKA+KK +K K K +KKK KK++
Sbjct: 71 WEKAEKKAEKAKAKAEKKKAKKEEP 95
Score = 34.8 bits (81), Expect = 0.041
Identities = 10/31 (32%), Positives = 15/31 (48%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDK 184
+ +K +KK +K K K +KKK K
Sbjct: 67 ELKAWEKAEKKAEKAKAKAEKKKAKKEEPKP 97
Score = 34.0 bits (79), Expect = 0.063
Identities = 9/34 (26%), Positives = 19/34 (55%)
Query: 152 VCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKN 185
+ +++ K +K +KK +K K K +KK ++
Sbjct: 62 LLDKKELKAWEKAEKKAEKAKAKAEKKKAKKEEP 95
Score = 32.9 bits (76), Expect = 0.14
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISV 182
EK +K K K +KKK KK++ K + V
Sbjct: 74 AEKKAEKAKAKAEKKKAKKEEPKPRLFV 101
>gnl|CDD|217502 pfam03343, SART-1, SART-1 family. SART-1 is a protein involved in
cell cycle arrest and pre-mRNA splicing. It has been
shown to be a component of U4/U6 x U5 tri-snRNP complex
in human, Schizosaccharomyces pombe and Saccharomyces
cerevisiae. SART-1 is a known tumour antigen in a range
of cancers recognised by T cells.
Length = 603
Score = 37.0 bits (86), Expect = 0.025
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKN 179
+ K KK KKKKKKKKK++K +
Sbjct: 268 DVSEMVKFKKPKKKKKKKKKRRKDLD 293
Score = 35.9 bits (83), Expect = 0.048
Identities = 14/24 (58%), Positives = 16/24 (66%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKN 179
E K KK KKKKKKKKK++K
Sbjct: 271 EMVKFKKPKKKKKKKKKRRKDLDE 294
Score = 34.7 bits (80), Expect = 0.11
Identities = 15/37 (40%), Positives = 20/37 (54%)
Query: 161 KKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISL 197
K KK KKKKKKKKK++K++ D+ E
Sbjct: 273 VKFKKPKKKKKKKKKRRKDLDEDELEPEAEGLGSSDS 309
Score = 34.3 bits (79), Expect = 0.13
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNI 180
+ K KK KKKKKKKKK++
Sbjct: 268 DVSEMVKFKKPKKKKKKKKKRRKD 291
Score = 29.0 bits (65), Expect = 8.0
Identities = 22/69 (31%), Positives = 37/69 (53%), Gaps = 10/69 (14%)
Query: 130 IAKLKEK----KILGLIERLT-KNADPVCTR---EKAKKKKKKK--KKKKKKKKKKKKKN 179
IAK +EK LG I+ L + D T+ +K+KK++KKK ++KK +K+K
Sbjct: 62 IAKAREKRERNSKLGGIKTLGEDDDDDDDTKAWLKKSKKRQKKKEAERKKALLLDEKEKE 121
Query: 180 ISVDKNSIN 188
+ + S +
Sbjct: 122 RAAEYTSED 130
Score = 28.6 bits (64), Expect = 8.5
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKI 195
K KKKKKKKKK++K + + + + S + + +
Sbjct: 277 KPKKKKKKKKKRRKDLDEDELEPEAEGLGSSDSGSRKDV 315
Score = 28.6 bits (64), Expect = 8.6
Identities = 23/92 (25%), Positives = 32/92 (34%), Gaps = 27/92 (29%)
Query: 122 LLNYDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKK-------------- 167
L YDE + K+KK L L EK +++ KKK K
Sbjct: 206 LSKYDEE--IEGKKKKSDNLF-TLDSGGSTDDEAEKKRQEVKKKLKINNVSLDDDSTETP 262
Query: 168 ----------KKKKKKKKKKKNISVDKNSIND 189
K KK KKKKK + +++
Sbjct: 263 ASDYYDVSEMVKFKKPKKKKKKKKKRRKDLDE 294
>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3
subunit. This is a family of proteins which are
subunits of the eukaryotic translation initiation factor
3 (eIF3). In yeast it is called Hcr1. The Saccharomyces
cerevisiae protein eIF3j (HCR1) has been shown to be
required for processing of 20S pre-rRNA and binds to 18S
rRNA and eIF3 subunits Rpg1p and Prt1p.
Length = 242
Score = 35.8 bits (83), Expect = 0.033
Identities = 15/47 (31%), Positives = 22/47 (46%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLYENFY 202
EK K +K K KKKK K K K N+ + +D + Y++
Sbjct: 193 EKLKAEKAAKGGKKKKGKAKAKLNVGGANDDDDDYDGYDDDFYDDDD 239
Score = 34.2 bits (79), Expect = 0.12
Identities = 9/32 (28%), Positives = 17/32 (53%)
Query: 146 TKNADPVCTREKAKKKKKKKKKKKKKKKKKKK 177
K + K K K ++K+K K++K++K
Sbjct: 48 EKAKVAAKAKAKKALKAKIEEKEKAKREKEEK 79
Score = 32.3 bits (74), Expect = 0.41
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKK 178
KAK KK K K ++K+K K++K
Sbjct: 55 KAKAKKALKAKIEEKEKAKREK 76
Score = 32.3 bits (74), Expect = 0.45
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENE 192
KAKK K K ++K+K K++K++ + E+E
Sbjct: 57 KAKKALKAKIEEKEKAKREKEEKGLRELEEDTPEDE 92
Score = 31.9 bits (73), Expect = 0.51
Identities = 8/36 (22%), Positives = 11/36 (30%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDE 190
+ KKKK K K K + +D
Sbjct: 199 KAAKGGKKKKGKAKAKLNVGGANDDDDDYDGYDDDF 234
Score = 31.9 bits (73), Expect = 0.53
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
EKAK K K KK K K ++K+
Sbjct: 47 EEKAKVAAKAKAKKALKAKIEEKE 70
Score = 31.9 bits (73), Expect = 0.65
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKK 178
+ AK K KK K K ++K+K K+
Sbjct: 50 AKVAAKAKAKKALKAKIEEKEKAKR 74
Score = 31.6 bits (72), Expect = 0.70
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDK 184
+ A K K KK K K ++K+K K +K
Sbjct: 51 KVAAKAKAKKALKAKIEEKEKAKREKEEK 79
Score = 31.2 bits (71), Expect = 0.98
Identities = 8/33 (24%), Positives = 15/33 (45%)
Query: 147 KNADPVCTREKAKKKKKKKKKKKKKKKKKKKKN 179
+ + K KK K K ++K+K K++
Sbjct: 44 EKEEEKAKVAAKAKAKKALKAKIEEKEKAKREK 76
Score = 30.0 bits (68), Expect = 2.7
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKK 178
E+ +++K K K K KK K K
Sbjct: 43 EEKEEEKAKVAAKAKAKKALKAK 65
Score = 28.9 bits (65), Expect = 5.6
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKK 178
E +K+++K K K K KK K
Sbjct: 41 EDEEKEEEKAKVAAKAKAKKALK 63
>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional.
Length = 1388
Score = 36.6 bits (85), Expect = 0.035
Identities = 25/80 (31%), Positives = 34/80 (42%), Gaps = 10/80 (12%)
Query: 118 VLKDLLNYDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKK 177
L++ +E IAK +RL + K K KKK+KKKKK K
Sbjct: 1140 ALEEQEEVEEKEIAK---------EQRLKSK-TKGKASKLRKPKLKKKEKKKKKSSADKS 1189
Query: 178 KNISVDKNSINDENENKISL 197
K SV NS +++ K L
Sbjct: 1190 KKASVVGNSKRVDSDEKRKL 1209
Score = 34.3 bits (79), Expect = 0.17
Identities = 22/101 (21%), Positives = 39/101 (38%), Gaps = 4/101 (3%)
Query: 119 LKDLLNYDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
L+DL ++E + + +E + E + T+ KA K +K K KKK+KKKKK
Sbjct: 1131 LEDLDKFEEA-LEEQEEVE---EKEIAKEQRLKSKTKGKASKLRKPKLKKKEKKKKKSSA 1186
Query: 179 NISVDKNSINDENENKISLYENFYSLDLALSSENPSLPLSN 219
+ S + + + S + +
Sbjct: 1187 DKSKKASVVGNSKRVDSDEKRKLDDKPDNKKSNSSGSDQED 1227
Score = 31.6 bits (72), Expect = 1.4
Identities = 12/78 (15%), Positives = 31/78 (39%)
Query: 128 TTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSI 187
+ K +K++ G + L K + KK K + K+ + + + K+
Sbjct: 1304 SPTKKKVKKRLEGSLAALKKKKKSEKKTARKKKSKTRVKQASASQSSRLLRRPRKKKSDS 1363
Query: 188 NDENENKISLYENFYSLD 205
+ E+++ + ++ D
Sbjct: 1364 SSEDDDDSEVDDSEDEDD 1381
Score = 30.4 bits (69), Expect = 2.5
Identities = 15/68 (22%), Positives = 24/68 (35%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLYENFYSLDLALSSENP 213
K ++ K K K K K +K K K K + + K S+ N +D +
Sbjct: 1151 EIAKEQRLKSKTKGKASKLRKPKLKKKEKKKKKSSADKSKKASVVGNSKRVDSDEKRKLD 1210
Query: 214 SLPLSNVR 221
P +
Sbjct: 1211 DKPDNKKS 1218
>gnl|CDD|221952 pfam13166, AAA_13, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins. This family includes the
PrrC protein that is thought to be the active component
of the anticodon nuclease.
Length = 713
Score = 36.1 bits (84), Expect = 0.047
Identities = 26/104 (25%), Positives = 44/104 (42%), Gaps = 8/104 (7%)
Query: 130 IAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKK--KKKKKKKKKNISVDKNSI 187
I +LK K++ L E++ + + +E+ +K K K K KK KK N+S +
Sbjct: 97 IEELK-KELKKLEEKIEQLEAEIEKKEEELEKAKNKFLDKAWKKLAKKYDSNLSEALKGL 155
Query: 188 NDENENKISLYENFYSLDLALSSENPSLPLSNVRILDLTRIIAG 231
N + K L + S+ L N S LS + + +
Sbjct: 156 NYKKNFKEKLLKELKSVIL-----NASSLLSLEELKAKIKTLFS 194
>gnl|CDD|218148 pfam04557, tRNA_synt_1c_R2, Glutaminyl-tRNA synthetase,
non-specific RNA binding region part 2. This is a
region found N terminal to the catalytic domain of
glutaminyl-tRNA synthetase (EC 6.1.1.18) in eukaryotes
but not in Escherichia coli. This region is thought to
bind RNA in a non-specific manner, enhancing
interactions between the tRNA and enzyme, but is not
essential for enzyme function.
Length = 83
Score = 33.1 bits (76), Expect = 0.051
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
+ KKKKKKKKKK + K
Sbjct: 20 ADLVKKKKKKKKKKAEDTAATAKA 43
Score = 31.9 bits (73), Expect = 0.13
Identities = 12/30 (40%), Positives = 15/30 (50%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNISVDKNS 186
KKKKKKKKK + K K + + S
Sbjct: 23 VKKKKKKKKKKAEDTAATAKAKKATAEDVS 52
Score = 31.2 bits (71), Expect = 0.20
Identities = 12/33 (36%), Positives = 13/33 (39%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDKNS 186
T KKKKKKKKKK + K
Sbjct: 18 TEADLVKKKKKKKKKKAEDTAATAKAKKATAED 50
Score = 28.5 bits (64), Expect = 1.7
Identities = 12/34 (35%), Positives = 16/34 (47%)
Query: 159 KKKKKKKKKKKKKKKKKKKKNISVDKNSINDENE 192
K + KKKKKKKKKK + + K +
Sbjct: 17 KTEADLVKKKKKKKKKKAEDTAATAKAKKATAED 50
Score = 27.7 bits (62), Expect = 3.3
Identities = 13/34 (38%), Positives = 16/34 (47%)
Query: 161 KKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
KKKKKKKKKK + K + D +E
Sbjct: 22 LVKKKKKKKKKKAEDTAATAKAKKATAEDVSEGA 55
Score = 27.3 bits (61), Expect = 4.4
Identities = 9/35 (25%), Positives = 13/35 (37%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDE 190
+K KKKKK + K KK + +
Sbjct: 26 KKKKKKKKAEDTAATAKAKKATAEDVSEGAMFMEG 60
Score = 26.9 bits (60), Expect = 7.2
Identities = 11/34 (32%), Positives = 17/34 (50%)
Query: 163 KKKKKKKKKKKKKKKKNISVDKNSINDENENKIS 196
KKKKKKKKKK + + E+ ++ +
Sbjct: 22 LVKKKKKKKKKKAEDTAATAKAKKATAEDVSEGA 55
>gnl|CDD|240388 PTZ00372, PTZ00372, endonuclease 4-like protein; Provisional.
Length = 413
Score = 35.5 bits (82), Expect = 0.056
Identities = 17/70 (24%), Positives = 27/70 (38%), Gaps = 1/70 (1%)
Query: 124 NYDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVD 183
T + K+KK E K+ ++K KK+ K + + K K KK +
Sbjct: 46 ENKVATTSTKKDKKEDKNNESKKKSE-KKKKKKKEKKEPKSEGETKLGFKTPKKSKKTKK 104
Query: 184 KNSINDENEN 193
K NE+
Sbjct: 105 KPPKPKPNED 114
Score = 30.1 bits (68), Expect = 2.7
Identities = 14/45 (31%), Positives = 21/45 (46%)
Query: 153 CTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISL 197
E KK +KKKKKKK+KK+ K + + + + K
Sbjct: 62 KNNESKKKSEKKKKKKKEKKEPKSEGETKLGFKTPKKSKKTKKKP 106
Score = 28.5 bits (64), Expect = 8.4
Identities = 19/58 (32%), Positives = 26/58 (44%), Gaps = 6/58 (10%)
Query: 147 KNADPVCTREKAKKKKK------KKKKKKKKKKKKKKKNISVDKNSINDENENKISLY 198
+ + V T K KK+ KKK +KKKKKKK+KK + + K S
Sbjct: 44 EEENKVATTSTKKDKKEDKNNESKKKSEKKKKKKKEKKEPKSEGETKLGFKTPKKSKK 101
>gnl|CDD|236978 PRK11778, PRK11778, putative inner membrane peptidase; Provisional.
Length = 330
Score = 35.2 bits (82), Expect = 0.065
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKK 177
KA+KKK+K++ K K K K +
Sbjct: 69 WHKAQKKKEKQEAKAAKAKSKPR 91
Score = 34.0 bits (79), Expect = 0.14
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKN 179
+K K K +KKK+K++ K K
Sbjct: 63 KKELKAWHKAQKKKEKQEAKAAKA 86
Score = 33.7 bits (78), Expect = 0.19
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISV 182
+ K +KKK+K++ K K K K + V
Sbjct: 67 KAWHKAQKKKEKQEAKAAKAKSKPRLFV 94
Score = 32.1 bits (74), Expect = 0.57
Identities = 11/36 (30%), Positives = 16/36 (44%), Gaps = 5/36 (13%)
Query: 143 ERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
L K + K +KKK+K++ K K K K
Sbjct: 59 ALLDKKE-----LKAWHKAQKKKEKQEAKAAKAKSK 89
>gnl|CDD|218336 pfam04935, SURF6, Surfeit locus protein 6. The surfeit locus
protein SURF-6 is shown to be a component of the
nucleolar matrix and has a strong binding capacity for
nucleic acids.
Length = 206
Score = 34.6 bits (80), Expect = 0.072
Identities = 16/26 (61%), Positives = 18/26 (69%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNI 180
RE+ KK+K KK KKKKK KKK I
Sbjct: 180 REENLKKRKDDKKNKKKKKAKKKGRI 205
Score = 33.0 bits (76), Expect = 0.20
Identities = 15/42 (35%), Positives = 27/42 (64%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKIS 196
R K +++K +KK+K+K+ KKK+ S + N+EN++K
Sbjct: 12 RRKREQRKARKKQKRKEAKKKEDAQKSEAEEVKNEENKSKKK 53
Score = 33.0 bits (76), Expect = 0.23
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKK 178
K +K KK KKKKK KKK +
Sbjct: 185 KKRKDDKKNKKKKKAKKKGRIL 206
Score = 31.9 bits (73), Expect = 0.59
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 155 REKAKKKKKKKKKKKKKKKKKK 176
+++ KK KKKKK KKK +
Sbjct: 185 KKRKDDKKNKKKKKAKKKGRIL 206
Score = 30.0 bits (68), Expect = 2.1
Identities = 12/24 (50%), Positives = 20/24 (83%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNI 180
KA K+K+K+KKK KK+ K++K+ +
Sbjct: 146 KALKRKEKQKKKSKKEWKERKEKV 169
Score = 30.0 bits (68), Expect = 2.1
Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 7/50 (14%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKK-------KNISVDKNSINDENENKIS 196
+ KA+KK+K+K+ KKK+ +K + +N S K + + E I
Sbjct: 16 EQRKARKKQKRKEAKKKEDAQKSEAEEVKNEENKSKKKAAPIENAEGNIV 65
Score = 30.0 bits (68), Expect = 2.2
Identities = 9/23 (39%), Positives = 20/23 (86%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKK 178
++ +K++++K +KK+K+K+ KKK
Sbjct: 10 QRRRKREQRKARKKQKRKEAKKK 32
Score = 29.6 bits (67), Expect = 2.7
Identities = 15/38 (39%), Positives = 21/38 (55%), Gaps = 4/38 (10%)
Query: 154 TREKAKKKKKKKK----KKKKKKKKKKKKNISVDKNSI 187
EK K +++KK+ KK+K KK KKK + K I
Sbjct: 168 KVEKKKAERQKKREENLKKRKDDKKNKKKKKAKKKGRI 205
Score = 29.2 bits (66), Expect = 4.5
Identities = 15/36 (41%), Positives = 20/36 (55%)
Query: 143 ERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
ER K R+K +++ KK+K KK KKKKK
Sbjct: 164 ERKEKVEKKKAERQKKREENLKKRKDDKKNKKKKKA 199
Score = 28.8 bits (65), Expect = 5.8
Identities = 7/23 (30%), Positives = 19/23 (82%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKN 179
+ +++K++++K +KK+K+K+ K
Sbjct: 9 EQRRRKREQRKARKKQKRKEAKK 31
Score = 28.4 bits (64), Expect = 6.6
Identities = 11/24 (45%), Positives = 20/24 (83%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
++ K+K+K+KKK KK+ K++K+K
Sbjct: 145 KKALKRKEKQKKKSKKEWKERKEK 168
Score = 28.4 bits (64), Expect = 7.4
Identities = 9/57 (15%), Positives = 29/57 (50%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLYENFYSLDLALSSEN 212
+++++K++++K +KK+K+K+ + ++ E K ++ ++E
Sbjct: 6 ALLEQRRRKREQRKARKKQKRKEAKKKEDAQKSEAEEVKNEENKSKKKAAPIENAEG 62
>gnl|CDD|220102 pfam09073, BUD22, BUD22. BUD22 has been shown in yeast to be a
nuclear protein involved in bud-site selection. It plays
a role in positioning the proximal bud pole signal. More
recently it has been shown to be involved in ribosome
biogenesis.
Length = 424
Score = 35.2 bits (81), Expect = 0.076
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 159 KKKKKKKKKKKKKKKKKKKKNISVDKNSINDEN 191
K KK K KKK KK KKK+ S DK+ +
Sbjct: 144 TKAKKGKAKKKTKKSKKKEAKESSDKDDEEESE 176
Score = 33.7 bits (77), Expect = 0.24
Identities = 18/40 (45%), Positives = 24/40 (60%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKIS 196
KAKK K KKK KK KKK+ K+ + D+ E+E+K
Sbjct: 145 KAKKGKAKKKTKKSKKKEAKESSDKDDEEESESEDESKSE 184
Score = 32.1 bits (73), Expect = 0.68
Identities = 14/38 (36%), Positives = 20/38 (52%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENE 192
E KK K KKK KK KKK+ K++ D ++ +
Sbjct: 142 IETKAKKGKAKKKTKKSKKKEAKESSDKDDEEESESED 179
Score = 29.4 bits (66), Expect = 5.2
Identities = 13/36 (36%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 161 KKKKKKKKKKKKKKKKKKNISVDKNSINDENENKIS 196
+ K KK K KKK KK KK + +D+++ + S
Sbjct: 143 ETKAKKGKAKKKTKKSKKK---EAKESSDKDDEEES 175
>gnl|CDD|221857 pfam12923, RRP7, Ribosomal RNA-processing protein 7 (RRP7). RRP7
is an essential protein in yeast that is involved in
pre-rRNA processing and ribosome assembly. It is
speculated to be required for correct assembly of rpS27
into the pre-ribosomal particle.
Length = 131
Score = 33.3 bits (77), Expect = 0.076
Identities = 22/81 (27%), Positives = 36/81 (44%), Gaps = 11/81 (13%)
Query: 105 RTPPPALGEHTDYVLKDLLNYDETTIAKLKEKKILG--------LIERLTKNADPVCTRE 156
P AL E D ++ YD+ +E K + R + +R
Sbjct: 13 FPDPEALQEEVDTYMEK---YDKREEEAKEEAKARSEPDEDGWTTVTRGGRKRKAGASRN 69
Query: 157 KAKKKKKKKKKKKKKKKKKKK 177
KA ++++K K+KKKKKKK+ +
Sbjct: 70 KAAEERRKLKEKKKKKKKELE 90
Score = 28.3 bits (64), Expect = 4.9
Identities = 10/23 (43%), Positives = 17/23 (73%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKK 178
+ K ++++K K+KKKKKKK+
Sbjct: 67 SRNKAAEERRKLKEKKKKKKKEL 89
>gnl|CDD|222977 PHA03089, PHA03089, late transcription factor VLTF-4; Provisional.
Length = 191
Score = 34.4 bits (79), Expect = 0.079
Identities = 14/41 (34%), Positives = 21/41 (51%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
T +K K +KKK KK KKKKK+K + + + +
Sbjct: 50 TSKKKKTTPRKKKTTKKTKKKKKEKEEVPELAAEELSDSEE 90
Score = 30.9 bits (70), Expect = 0.99
Identities = 15/40 (37%), Positives = 26/40 (65%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENEN 193
+ +KKK KK KKKKK+K++ ++ ++ S ++ENE
Sbjct: 54 KKTTPRKKKTTKKTKKKKKEKEEVPELAAEELSDSEENEE 93
Score = 30.5 bits (69), Expect = 1.3
Identities = 15/40 (37%), Positives = 24/40 (60%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENEN 193
++K +KKK KK KKKKK+K++ + ++D EN
Sbjct: 52 KKKKTTPRKKKTTKKTKKKKKEKEEVPELAAEELSDSEEN 91
Score = 27.9 bits (62), Expect = 9.1
Identities = 15/41 (36%), Positives = 23/41 (56%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
T K K KK KKKKK+K++ + + + N+EN+ K
Sbjct: 57 TPRKKKTTKKTKKKKKEKEEVPELAAEELSDSEENEENDKK 97
>gnl|CDD|115057 pfam06375, BLVR, Bovine leukaemia virus receptor (BLVR). This
family consists of several bovine specific leukaemia
virus receptors which are thought to function as
transmembrane proteins, although their exact function is
unknown.
Length = 561
Score = 35.0 bits (80), Expect = 0.10
Identities = 21/64 (32%), Positives = 29/64 (45%), Gaps = 18/64 (28%)
Query: 151 PVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLYENFYSLDLALSS 210
P ++ K KKK+KK+K+K++ K KKK + E F SL LAL
Sbjct: 193 PAVEKKSKKPKKKEKKEKEKERDKDKKKEV------------------EGFKSLLLALDD 234
Query: 211 ENPS 214
S
Sbjct: 235 SPAS 238
Score = 33.9 bits (77), Expect = 0.22
Identities = 8/24 (33%), Positives = 20/24 (83%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
R++ +K K++KKK++K+K+ +++
Sbjct: 91 RQRLEKDKREKKKREKEKRGRRRH 114
Score = 31.6 bits (71), Expect = 1.1
Identities = 11/41 (26%), Positives = 27/41 (65%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKIS 196
E+ + +++ +K K++KKK++K+K +S+ E++ I+
Sbjct: 86 EERRHRQRLEKDKREKKKREKEKRGRRRHHSLGTESDEDIA 126
Score = 31.2 bits (70), Expect = 1.6
Identities = 16/32 (50%), Positives = 25/32 (78%)
Query: 147 KNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
K+A+ T++ K KKKK++K+K++KKKKKK
Sbjct: 267 KDAEAEETKKSPKHKKKKQRKEKEEKKKKKKH 298
Score = 30.4 bits (68), Expect = 2.8
Identities = 20/89 (22%), Positives = 37/89 (41%), Gaps = 7/89 (7%)
Query: 128 TTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSI 187
+K EK + +E+ +K + K K+KK+K+K++ K KKK+ + S+
Sbjct: 181 AETSKSPEKGDVPAVEKKSK-------KPKKKEKKEKEKERDKDKKKEVEGFKSLLLALD 233
Query: 188 NDENENKISLYENFYSLDLALSSENPSLP 216
+ + SL +S P
Sbjct: 234 DSPASAASVAEADEASLANTVSGTAPDSE 262
Score = 29.6 bits (66), Expect = 4.0
Identities = 14/32 (43%), Positives = 20/32 (62%)
Query: 147 KNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
+ D K K KKKK++K+K++KKKKK
Sbjct: 265 EPKDAEAEETKKSPKHKKKKQRKEKEEKKKKK 296
Score = 28.9 bits (64), Expect = 8.1
Identities = 10/37 (27%), Positives = 23/37 (62%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDEN 191
R ++ +K K++KKK++K+K+ + + +DE+
Sbjct: 88 RRHRQRLEKDKREKKKREKEKRGRRRHHSLGTESDED 124
Score = 28.5 bits (63), Expect = 9.1
Identities = 13/22 (59%), Positives = 18/22 (81%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKK 178
K KKKK++K+K++KKKKKK
Sbjct: 279 KHKKKKQRKEKEEKKKKKKHHH 300
>gnl|CDD|235505 PRK05563, PRK05563, DNA polymerase III subunits gamma and tau;
Validated.
Length = 559
Score = 34.8 bits (81), Expect = 0.11
Identities = 17/72 (23%), Positives = 33/72 (45%), Gaps = 5/72 (6%)
Query: 126 DETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKN 185
+T + L ++ +E+L + + + ++K+KKK+KKK KKKK + K
Sbjct: 367 YDTELEVLLQR-----VEQLEQELKQLKAQPVGVAPEQKEKKKEKKKNKKKKYKVPRGKI 421
Query: 186 SINDENENKISL 197
+ + L
Sbjct: 422 YKVLKEATRQDL 433
>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein. This protein is found to be part
of a large ribonucleoprotein complex containing the U3
snoRNA. Depletion of the Utp proteins impedes production
of the 18S rRNA, indicating that they are part of the
active pre-rRNA processing complex. This large RNP
complex has been termed the small subunit (SSU)
processome.
Length = 728
Score = 35.0 bits (81), Expect = 0.11
Identities = 15/39 (38%), Positives = 25/39 (64%)
Query: 161 KKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLYE 199
K K K KKKKKK+K+I +D + I++E+ K+ + +
Sbjct: 525 NKISKAAVKVKKKKKKEKSIDLDDDLIDEEDSIKLDVDD 563
Score = 31.2 bits (71), Expect = 1.5
Identities = 11/38 (28%), Positives = 17/38 (44%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
K K K KKKKKK+K + +D+ + +
Sbjct: 526 KISKAAVKVKKKKKKEKSIDLDDDLIDEEDSIKLDVDD 563
Score = 29.3 bits (66), Expect = 6.1
Identities = 11/31 (35%), Positives = 19/31 (61%), Gaps = 4/31 (12%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKN 185
R+K +K+K++ K + KK+K+K DK
Sbjct: 629 RKKKRKRKRRFLTKIEGVKKEKRK----DKK 655
>gnl|CDD|240576 cd12932, RRP7_like, RRP7 domain ribosomal RNA-processing protein 7
(Rrp7p), ribosomal RNA-processing protein 7 homolog A
(Rrp7A), and similar proteins. This CD corresponds to
the RRP7 domain of Rrp7p and Rrp7A. Rrp7p is encoded by
YCL031C gene from Saccharomyces cerevisiae. It is an
essential yeast protein involved in pre-rRNA processing
and ribosome assembly, and is speculated to be required
for correct assembly of rpS27 into the pre-ribosomal
particle. Rrp7A, also termed gastric cancer antigen
Zg14, is the Rrp7p homolog mainly found in Metazoans.
The cellular function of Rrp7A remains unclear
currently. Both Rrp7p and Rrp7A harbor an N-terminal RNA
recognition motif (RRM), also termed RBD (RNA binding
domain) or RNP (ribonucleoprotein domain), and a
C-terminal RRP7 domain.
Length = 118
Score = 32.6 bits (75), Expect = 0.11
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKN 179
T + + K K+K+KKKKKKK+ ++
Sbjct: 65 TAREEAVEAKAKEKEKKKKKKKELED 90
Score = 31.8 bits (73), Expect = 0.22
Identities = 17/44 (38%), Positives = 25/44 (56%), Gaps = 7/44 (15%)
Query: 144 RLTKNADPVCTREKAKKKKKKKKKKKKKK-------KKKKKKNI 180
R K A KAK+K+KKKKKKK+ + ++KKK+ +
Sbjct: 61 RKGKTAREEAVEAKAKEKEKKKKKKKELEDFYRFQIREKKKEEL 104
>gnl|CDD|220431 pfam09831, DUF2058, Uncharacterized protein conserved in bacteria
(DUF2058). This domain, found in various prokaryotic
proteins, has no known function.
Length = 177
Score = 33.7 bits (78), Expect = 0.12
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
+KAKK KK+K+K++K+ +K K + + K
Sbjct: 15 KKAKKAKKEKRKQRKQARKGADDGDDELKQAAEEAKAEK 53
Score = 33.3 bits (77), Expect = 0.15
Identities = 11/21 (52%), Positives = 17/21 (80%)
Query: 159 KKKKKKKKKKKKKKKKKKKKN 179
KKK KK KK+K+K++K+ +K
Sbjct: 14 KKKAKKAKKEKRKQRKQARKG 34
Score = 31.4 bits (72), Expect = 0.62
Identities = 14/43 (32%), Positives = 25/43 (58%), Gaps = 5/43 (11%)
Query: 158 AKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLYEN 200
KKK KK KK+K+K++K+ + K + + ++E K + E
Sbjct: 12 VDKKKAKKAKKEKRKQRKQAR-----KGADDGDDELKQAAEEA 49
Score = 31.4 bits (72), Expect = 0.63
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNISVD 183
K K KK KK+K+K++K+ +K + D
Sbjct: 14 KKKAKKAKKEKRKQRKQARKGADDGDD 40
Score = 28.3 bits (64), Expect = 6.5
Identities = 9/22 (40%), Positives = 16/22 (72%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKK 177
+K KK KK+K+K++K+ +K
Sbjct: 14 KKKAKKAKKEKRKQRKQARKGA 35
>gnl|CDD|220611 pfam10169, Laps, Learning-associated protein. This is a family of
121-amino acid secretory proteins. Laps functions in the
regulation of neuronal cell adhesion and/or movement and
synapse attachment. Laps binds to the ApC/EBP (Aplysia
CCAAT/enhancer binding protein) promoter and activates
the transcription of ApC/EBP mRNA.
Length = 124
Score = 32.9 bits (75), Expect = 0.12
Identities = 14/22 (63%), Positives = 18/22 (81%)
Query: 159 KKKKKKKKKKKKKKKKKKKKNI 180
+ KK KKK++KKKKKKK KN+
Sbjct: 102 QAKKLKKKREKKKKKKKGAKNL 123
Score = 31.0 bits (70), Expect = 0.53
Identities = 14/28 (50%), Positives = 18/28 (64%)
Query: 151 PVCTREKAKKKKKKKKKKKKKKKKKKKK 178
P ++ KK KKK++KKKKKKK K
Sbjct: 95 PAWMNQRQAKKLKKKREKKKKKKKGAKN 122
Score = 30.6 bits (69), Expect = 0.71
Identities = 14/22 (63%), Positives = 17/22 (77%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKK 178
+AKK KKK++KKKKKKK K
Sbjct: 102 QAKKLKKKREKKKKKKKGAKNL 123
Score = 29.0 bits (65), Expect = 2.4
Identities = 13/24 (54%), Positives = 16/24 (66%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
R+ K KKK++KKKKKKK K
Sbjct: 101 RQAKKLKKKREKKKKKKKGAKNLA 124
Score = 27.9 bits (62), Expect = 6.4
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKK 177
+ K KKK++KKKKKKK K
Sbjct: 101 RQAKKLKKKREKKKKKKKGAKNLA 124
Score = 27.5 bits (61), Expect = 8.2
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 161 KKKKKKKKKKKKKKKKKKN 179
+++ KK KKK++KKKKK
Sbjct: 99 NQRQAKKLKKKREKKKKKK 117
>gnl|CDD|217476 pfam03286, Pox_Ag35, Pox virus Ag35 surface protein.
Length = 198
Score = 33.6 bits (77), Expect = 0.13
Identities = 18/66 (27%), Positives = 27/66 (40%), Gaps = 5/66 (7%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSIND-----ENENKISLYENFYSLDLAL 208
++K +K KK KKK K+K +K +D ENEN E +
Sbjct: 51 PKKKRPTTPRKPATTKKSKKKDKEKLTEEEKKPESDDDKTEENENDPDNNEESGDSQESA 110
Query: 209 SSENPS 214
S+ + S
Sbjct: 111 SANSLS 116
>gnl|CDD|222592 pfam14204, Ribosomal_L18_c, Ribosomal L18 C-terminal region. This
domain is the C-terminal end of ribosomal L18/L5
proteins.
Length = 93
Score = 31.8 bits (73), Expect = 0.14
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 12/43 (27%)
Query: 142 IERLTKNA------DPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
IE + K A DP ++KKK+KK+ K + K+ KK
Sbjct: 44 IEEMYKKAHAAIRADP------SRKKKEKKEVKAESKRYNAKK 80
Score = 30.2 bits (69), Expect = 0.50
Identities = 9/27 (33%), Positives = 16/27 (59%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNIS 181
R +KKK+KK+ K + K+ K ++
Sbjct: 56 RADPSRKKKEKKEVKAESKRYNAKKLT 82
>gnl|CDD|221654 pfam12589, WBS_methylT, Methyltransferase involved in
Williams-Beuren syndrome. This domain family is found
in eukaryotes, and is typically between 72 and 83 amino
acids in length. The family is found in association with
pfam08241. This family is made up of
S-adenosylmethionine-dependent methyltransferases. The
proteins are deleted in Williams-Beuren syndrome (WBS),
a complex developmental disorder with multisystemic
manifestations including supravalvular aortic stenosis
(SVAS) and a specific cognitive phenotype.
Length = 85
Score = 31.5 bits (72), Expect = 0.15
Identities = 13/29 (44%), Positives = 18/29 (62%), Gaps = 4/29 (13%)
Query: 152 VCTREKAKKKKKKKKKKKKKKK----KKK 176
++ ++KKKKKKK KKK K +KK
Sbjct: 33 RRISQRNRRKKKKKKKLKKKSKEWILRKK 61
Score = 30.3 bits (69), Expect = 0.38
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKK 176
R +++ ++KKKKKKK KKK K
Sbjct: 32 VRRISQRNRRKKKKKKKLKKKSK 54
Score = 30.3 bits (69), Expect = 0.50
Identities = 11/25 (44%), Positives = 18/25 (72%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKK 178
++ + ++ ++KKKKKKK KKK K
Sbjct: 30 SKVRRISQRNRRKKKKKKKLKKKSK 54
Score = 29.6 bits (67), Expect = 0.75
Identities = 10/31 (32%), Positives = 19/31 (61%)
Query: 148 NADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
+ + + + + ++ ++KKKKKKK KKK
Sbjct: 23 DDEQIDASKVRRISQRNRRKKKKKKKLKKKS 53
Score = 29.6 bits (67), Expect = 0.87
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 150 DPVCTREKAKKKKKKKKKKKKKKKKKKKKN 179
D K ++ ++ ++KKKKKKK KKK+
Sbjct: 24 DEQIDASKVRRISQRNRRKKKKKKKLKKKS 53
>gnl|CDD|218941 pfam06217, GAGA_bind, GAGA binding protein-like family. This
family includes gbp a protein from Soybean that binds to
GAGA element dinucleotide repeat DNA. It seems likely
that the this domain mediates DNA binding. This putative
domain contains several conserved cysteines and a
histidine suggesting this may be a zinc-binding DNA
interaction domain.
Length = 301
Score = 33.7 bits (77), Expect = 0.17
Identities = 15/44 (34%), Positives = 17/44 (38%)
Query: 149 ADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENE 192
A P K KK + K K K KK KK SV S+
Sbjct: 140 APPEAKEVKKPKKGQSPKVPKAPKPKKPKKKGSVSNRSVKMPGI 183
Score = 28.7 bits (64), Expect = 8.1
Identities = 12/30 (40%), Positives = 13/30 (43%)
Query: 161 KKKKKKKKKKKKKKKKKKNISVDKNSINDE 190
K K K KK KKK N SV I+
Sbjct: 157 KVPKAPKPKKPKKKGSVSNRSVKMPGIDPR 186
>gnl|CDD|219755 pfam08231, SYF2, SYF2 splicing factor. Proteins in this family are
involved in cell cycle progression and pre-mRNA
splicing.
Length = 157
Score = 32.7 bits (75), Expect = 0.18
Identities = 9/46 (19%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 163 KKKKKKKKKKKKKKKKNISVDKNSINDENE---NKISLYENFYSLD 205
+K+++K+ K +++ + D + IN+ N+ K+ + + Y+ +
Sbjct: 106 EKQQEKRLKFSRRRGFDDEADIDYINERNKKFNKKLDRFYDKYTAE 151
Score = 27.7 bits (62), Expect = 8.8
Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 15/60 (25%)
Query: 154 TREKAKKKKKKKKKKKKKKK---------------KKKKKNISVDKNSINDENENKISLY 198
+ E+++K KKKKKKK K K++ KN+ D + E +
Sbjct: 16 SAEESEKWDKKKKKKKNKDDFGFNDYEQDALYRAYKRRLKNLKPDLEEYEKQKEAVGEKF 75
>gnl|CDD|205206 pfam13025, DUF3886, Protein of unknown function (DUF3886). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are approximately 90 amino acids in length.
There are two completely conserved L residues that may
be functionally important.
Length = 70
Score = 30.8 bits (70), Expect = 0.19
Identities = 19/64 (29%), Positives = 39/64 (60%), Gaps = 16/64 (25%)
Query: 119 LKDLLNYDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
LKD+LN D +AKLK KK + L + + +K++++++ +K++++K+++K
Sbjct: 10 LKDMLNAD--LLAKLKAKK-----KEL---------KAEEEKREEEEEARKREERKEREK 53
Query: 179 NISV 182
N S
Sbjct: 54 NKSF 57
>gnl|CDD|193409 pfam12936, Kri1_C, KRI1-like family C-terminal. The yeast member
of this family (Kri1p) is found to be required for 40S
ribosome biogenesis in the nucleolus. This is the
C-terminal domain of the family.
Length = 93
Score = 31.4 bits (72), Expect = 0.20
Identities = 10/26 (38%), Positives = 18/26 (69%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNI 180
R+K +++K KKK KK + ++ KK +
Sbjct: 67 RDKEERRKDKKKYGKKARLREWKKKV 92
Score = 27.2 bits (61), Expect = 6.5
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKK 177
+E+ +K KKK KK + ++ KKK
Sbjct: 68 DKEERRKDKKKYGKKARLREWKKK 91
Score = 27.2 bits (61), Expect = 7.3
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKK 178
E+ K KKK KK + ++ KKK
Sbjct: 71 ERRKDKKKYGKKARLREWKKKVF 93
>gnl|CDD|214395 CHL00204, ycf1, Ycf1; Provisional.
Length = 1832
Score = 33.9 bits (78), Expect = 0.21
Identities = 17/53 (32%), Positives = 29/53 (54%)
Query: 130 IAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISV 182
I+ L +K + + EK KKKKKK+KKK+++ K+++K I +
Sbjct: 717 ISGLMKKIFRNWNGKDAEFKISDSVEEKTKKKKKKEKKKEEEYKREEKARIEI 769
>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein. The proteins in this family
are designated YL1. These proteins have been shown to be
DNA-binding and may be a transcription factor.
Length = 238
Score = 33.1 bits (76), Expect = 0.23
Identities = 13/23 (56%), Positives = 16/23 (69%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKK 178
E+ KKKK+ K K K+ KKKKK
Sbjct: 82 ERLKKKKRVKTKAYKEPTKKKKK 104
Score = 33.1 bits (76), Expect = 0.23
Identities = 16/32 (50%), Positives = 21/32 (65%), Gaps = 2/32 (6%)
Query: 155 REKAKKKKKKKKKK--KKKKKKKKKKNISVDK 184
RE+ KKKK+ K K K+ KKKKKK+ + K
Sbjct: 80 REERLKKKKRVKTKAYKEPTKKKKKKDPTAAK 111
Score = 32.7 bits (75), Expect = 0.36
Identities = 14/40 (35%), Positives = 17/40 (42%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
R K KK+ K K K+ KKKKKK + K
Sbjct: 83 RLKKKKRVKTKAYKEPTKKKKKKDPTAAKSPKAAAPRPKK 122
Score = 29.3 bits (66), Expect = 3.8
Identities = 11/22 (50%), Positives = 17/22 (77%)
Query: 155 REKAKKKKKKKKKKKKKKKKKK 176
RE +KK + K +K+K+KKK+K
Sbjct: 160 REIRRKKIQAKARKRKEKKKEK 181
>gnl|CDD|218188 pfam04641, Rtf2, Replication termination factor 2. It is vital for
effective cell-replication that replication is not
stalled at any point by, for instance, damaged bases.
Rtf2 stabilizes the replication fork stalled at the
site-specific replication barrier RTS1 by preventing
replication restart until completion of DNA synthesis by
a converging replication fork initiated at a flanking
origin. The RTS1 element terminates replication forks
that are moving in the cen2-distal direction while
allowing forks moving in the cen2-proximal direction to
pass through the region. Rtf2 contains a C2HC2 motif
related to the C3HC4 RING-finger motif, and would appear
to fold up, creating a RING finger-like structure but
forming only one functional Zn2+ ion-binding site.
Length = 254
Score = 33.1 bits (76), Expect = 0.23
Identities = 14/24 (58%), Positives = 15/24 (62%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
E+AKKKKKKKKKK KK
Sbjct: 178 EERAKKKKKKKKKKTKKNNATGSS 201
Score = 32.7 bits (75), Expect = 0.35
Identities = 15/23 (65%), Positives = 20/23 (86%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKN 179
KA+ ++++ KKKKKKKKKK KKN
Sbjct: 173 KARLEEERAKKKKKKKKKKTKKN 195
Score = 31.2 bits (71), Expect = 0.94
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNI 180
+ + ++++ KKKKKKKKKK KK
Sbjct: 173 KARLEEERAKKKKKKKKKKTKKNNAT 198
Score = 31.2 bits (71), Expect = 1.2
Identities = 12/41 (29%), Positives = 14/41 (34%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKI 195
R K KKKKKKKK KK + +
Sbjct: 180 RAKKKKKKKKKKTKKNNATGSSAEATVSSAVPTELSSGAGQ 220
Score = 30.8 bits (70), Expect = 1.2
Identities = 13/25 (52%), Positives = 18/25 (72%)
Query: 160 KKKKKKKKKKKKKKKKKKKNISVDK 184
++++ KKKKKKKKKK KK N +
Sbjct: 177 EEERAKKKKKKKKKKTKKNNATGSS 201
Score = 28.5 bits (64), Expect = 8.8
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKIS 196
+ K + ++++ KKKKKKKKKK + + E +
Sbjct: 170 ELLKARLEEERAKKKKKKKKKKTKKNNATGSSAEATVSSA 209
>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1. This domain
family is found in eukaryotes, and is approximately 40
amino acids in length. The family is found in
association with pfam07719, pfam00515. There is a single
completely conserved residue L that may be functionally
important. NARP1 is the mammalian homologue of a yeast
N-terminal acetyltransferase that regulates entry into
the G(0) phase of the cell cycle.
Length = 516
Score = 33.8 bits (78), Expect = 0.24
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKN 185
R+K +K +KK +K++ +K KKK + K
Sbjct: 415 RKKQRKAEKKAEKEEAEKAAAKKKAEAAAKK 445
Score = 31.8 bits (73), Expect = 0.84
Identities = 9/24 (37%), Positives = 18/24 (75%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
R+K +KK++K +KK +K++ +K
Sbjct: 411 RKKLRKKQRKAEKKAEKEEAEKAA 434
Score = 28.7 bits (65), Expect = 8.4
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKN 185
+KA+K++ +K KKK + KK D
Sbjct: 422 EKKAEKEEAEKAAAKKKAEAAAKKAKGPDGE 452
Score = 28.7 bits (65), Expect = 9.0
Identities = 10/48 (20%), Positives = 22/48 (45%)
Query: 145 LTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENE 192
L + + ++KK +KK++K +KK + +K + + E
Sbjct: 393 LAEGEEEEGENGNLSPAERKKLRKKQRKAEKKAEKEEAEKAAAKKKAE 440
>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional.
Length = 213
Score = 33.0 bits (76), Expect = 0.26
Identities = 9/25 (36%), Positives = 16/25 (64%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKN 179
RE A +K+K ++++K K K +K
Sbjct: 122 REAAGEKEKAPRRERKPKPKAPRKK 146
Score = 30.7 bits (70), Expect = 1.2
Identities = 16/83 (19%), Positives = 37/83 (44%), Gaps = 7/83 (8%)
Query: 113 EHTDYVLKDLLNYDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKK 172
EH ++ K L E AK++ ++ ++ K + ++++K K K +KK
Sbjct: 94 EHVEHARKQL----EEAKAKVQAQR---AEQQAKKREAAGEKEKAPRRERKPKPKAPRKK 146
Query: 173 KKKKKKNISVDKNSINDENENKI 195
+K + + ++D +E +
Sbjct: 147 RKPRAQKPEPQHTPVSDISELTV 169
>gnl|CDD|180007 PRK05309, PRK05309, 30S ribosomal protein S11; Validated.
Length = 128
Score = 31.7 bits (73), Expect = 0.28
Identities = 11/17 (64%), Positives = 11/17 (64%)
Query: 166 KKKKKKKKKKKKKNISV 182
KKKK KKK KKNI
Sbjct: 1 AKKKKTVKKKVKKNIPS 17
>gnl|CDD|219547 pfam07741, BRF1, Brf1-like TBP-binding domain. This region covers
both the Brf homology II and III regions. This region is
involved in binding TATA binding protein.
Length = 95
Score = 31.1 bits (71), Expect = 0.29
Identities = 11/26 (42%), Positives = 13/26 (50%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNI 180
K K + KKKKK+K KKK
Sbjct: 36 ELKQKADEGNNSGKKKKKRKAKKKRD 61
Score = 29.9 bits (68), Expect = 0.81
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKN 185
++KA + KKKKK+K KKK+
Sbjct: 38 KQKADEGNNSGKKKKKRKAKKKRDEAGPAST 68
Score = 29.5 bits (67), Expect = 1.0
Identities = 10/32 (31%), Positives = 15/32 (46%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKNS 186
+E +K + KKKKK+K KK +
Sbjct: 35 KELKQKADEGNNSGKKKKKRKAKKKRDEAGPA 66
Score = 28.4 bits (64), Expect = 2.4
Identities = 13/32 (40%), Positives = 20/32 (62%), Gaps = 7/32 (21%)
Query: 155 REKAKKKKKKKK-------KKKKKKKKKKKKN 179
E+ +K+ K+K KKKKK+K KKK++
Sbjct: 30 EEQEEKELKQKADEGNNSGKKKKKRKAKKKRD 61
Score = 28.0 bits (63), Expect = 3.3
Identities = 11/28 (39%), Positives = 14/28 (50%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVD 183
EK K+K + KKKKK+K D
Sbjct: 34 EKELKQKADEGNNSGKKKKKRKAKKKRD 61
>gnl|CDD|220267 pfam09494, Slx4, Slx4 endonuclease. The Slx4 protein is a
heteromeric structure-specific endonuclease found in
fungi. Slx4 with Slx1 acts as a nuclease on branched DNA
substrates, particularly simple-Y, 5'-flap, or
replication fork structures by cleaving the strand
bearing the 5' non-homologous arm at the branch junction
and thus generating ligatable nicked products from
5'-flap or replication fork substrates.
Length = 627
Score = 33.4 bits (76), Expect = 0.31
Identities = 16/70 (22%), Positives = 29/70 (41%), Gaps = 1/70 (1%)
Query: 126 DETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKN 185
+E +L+ ++++ + K+ KKKK KK K +K+ K+ K
Sbjct: 36 EEEENQRLQLRQVISRFTSFESDDQANSGNVSGKRVPKKKKIKKPKLRKRTKRKNKKIK- 94
Query: 186 SINDENENKI 195
S+ NE
Sbjct: 95 SLTAFNEENF 104
>gnl|CDD|219572 pfam07780, Spb1_C, Spb1 C-terminal domain. This presumed domain is
found at the C-terminus of a family of FtsJ-like
methyltransferases. Members of this family are involved
in 60S ribosomal biogenesis.
Length = 212
Score = 32.7 bits (75), Expect = 0.33
Identities = 22/51 (43%), Positives = 30/51 (58%), Gaps = 6/51 (11%)
Query: 134 KEKKILGLIERLTKNADPVCT------REKAKKKKKKKKKKKKKKKKKKKK 178
K+ + L +E+ K A+ + REKAK+ KK KK KKKKKK+KK
Sbjct: 120 KKMRALKRLEKAKKKAEAIAEDEDISEREKAKQIKKLYKKAKKKKKKRKKT 170
>gnl|CDD|187751 cd09270, RNase_H2-B, Ribonuclease H2-B is a subunit of the
eukaryotic RNase H complex which cleaves RNA-DNA
hybrids. Ribonuclease H2B is one of the three proteins
of eukaryotic RNase H2 complex that is required for
nucleic acid binding and hydrolysis. RNase H is
classified into two families, type I (prokaryotic RNase
HI, eukaryotic RNase H1 and viral RNase H) and type II
(prokaryotic RNase HII and HIII, and eukaryotic RNase
H2/HII). RNase H endonucleolytically hydrolyzes an RNA
strand when it is annealed to a complementary DNA strand
in the presence of divalent cations, in DNA replication
and repair. The enzyme can be found in bacteria,
archaea, and eukaryotes. Most prokaryotic and eukaryotic
genomes contain multiple RNase H genes. Despite a lack
of evidence for homology from sequence comparisons, type
I and type II RNase H share a common fold and similar
steric configurations of the four acidic active-site
residues, suggesting identical or very similar catalytic
mechanisms. Eukaryotic RNase HII is active during
replication and is believed to play a role in removal of
Okazaki fragment primers and single ribonucleotides in
DNA-DNA duplexes. Eukaryotic RNase HII is functional
when it forms a complex with RNase H2B and RNase H2C
proteins. It is speculated that the two accessory
subunits are required for correct folding of the
catalytic subunit of RNase HII. Mutations in the three
subunits of human RNase HII cause neurological disorder.
Length = 211
Score = 32.7 bits (75), Expect = 0.34
Identities = 21/63 (33%), Positives = 30/63 (47%), Gaps = 3/63 (4%)
Query: 122 LLNYDETTIAKLKEKKIL---GLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
LL + + +LK+K++ R K ++ +K KKKK KKKK KK K
Sbjct: 145 LLAWLLKKVERLKKKELDIKEAEAARDKKKSNNAEEEKKKKKKKSAKKKKLKKVAAVGMK 204
Query: 179 NIS 181
IS
Sbjct: 205 AIS 207
Score = 32.3 bits (74), Expect = 0.36
Identities = 25/70 (35%), Positives = 34/70 (48%), Gaps = 13/70 (18%)
Query: 126 DETTIAKLKEKKILGLIERLTK--------NADPVCTREKAKKKKKKKKKKKKKKKKKKK 177
DE +A L +K +ERL K A + +++KKKKKKK KKKK K
Sbjct: 142 DEKLLAWLLKK-----VERLKKKELDIKEAEAARDKKKSNNAEEEKKKKKKKSAKKKKLK 196
Query: 178 KNISVDKNSI 187
K +V +I
Sbjct: 197 KVAAVGMKAI 206
>gnl|CDD|215239 PLN02436, PLN02436, cellulose synthase A.
Length = 1094
Score = 33.3 bits (76), Expect = 0.36
Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 6/50 (12%)
Query: 153 CTREKAKKKKKKKKKKKKKKKKKKKKNISVDKN------SINDENENKIS 196
C + KKKKKK K+KKKKK ++ K I +N N+E ++
Sbjct: 680 CCGSRKKKKKKKSKEKKKKKNREASKQIHALENIEEGIEGSNNEKSSETP 729
>gnl|CDD|114709 pfam06003, SMN, Survival motor neuron protein (SMN). This family
consists of several eukaryotic survival motor neuron
(SMN) proteins. The Survival of Motor Neurons (SMN)
protein, the product of the spinal muscular
atrophy-determining gene, is part of a large
macromolecular complex (SMN complex) that functions in
the assembly of spliceosomal small nuclear
ribonucleoproteins (snRNPs). The SMN complex functions
as a specificity factor essential for the efficient
assembly of Sm proteins on U snRNAs and likely protects
cells from illicit, and potentially deleterious,
non-specific binding of Sm proteins to RNAs.
Length = 264
Score = 32.7 bits (74), Expect = 0.37
Identities = 17/60 (28%), Positives = 30/60 (50%), Gaps = 1/60 (1%)
Query: 125 YDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDK 184
+D+T + K +K + + KN D +E ++ KK+K KK + +KK N + K
Sbjct: 9 WDDTALIKAYDKAVASF-KNALKNEDCATPQENDEQNPGKKRKNNKKNRSRKKCNAAPLK 67
>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional.
Length = 509
Score = 33.0 bits (76), Expect = 0.39
Identities = 12/53 (22%), Positives = 20/53 (37%)
Query: 126 DETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
+ + ++L + + K+ D + KKK K K K KKK
Sbjct: 43 ESKKKTPEQIDQVLIFLSGMVKDTDDATESDIPKKKTKTAAKAAAAKAPAKKK 95
Score = 32.3 bits (74), Expect = 0.66
Identities = 13/65 (20%), Positives = 23/65 (35%)
Query: 127 ETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNS 186
+ + K + I + KA KKK K + KK +KK + D +
Sbjct: 59 LSGMVKDTDDATESDIPKKKTKTAAKAAAAKAPAKKKLKDELDSSKKAEKKNALDKDDDL 118
Query: 187 INDEN 191
++
Sbjct: 119 NYVKD 123
Score = 31.1 bits (71), Expect = 1.4
Identities = 11/69 (15%), Positives = 21/69 (30%)
Query: 126 DETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKN 185
+ G+++ + ++K K K K KKK K + S K
Sbjct: 47 KTPEQIDQVLIFLSGMVKDTDDATESDIPKKKTKTAAKAAAAKAPAKKKLKDELDSSKKA 106
Query: 186 SINDENENK 194
+ +
Sbjct: 107 EKKNALDKD 115
Score = 30.0 bits (68), Expect = 3.6
Identities = 11/52 (21%), Positives = 16/52 (30%)
Query: 147 KNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLY 198
T KA K KKK K + KK + +D+ +
Sbjct: 74 IPKKKTKTAAKAAAAKAPAKKKLKDELDSSKKAEKKNALDKDDDLNYVKDID 125
>gnl|CDD|216337 pfam01159, Ribosomal_L6e, Ribosomal protein L6e.
Length = 108
Score = 31.1 bits (71), Expect = 0.39
Identities = 15/38 (39%), Positives = 21/38 (55%), Gaps = 7/38 (18%)
Query: 154 TREKAKKKKKK-------KKKKKKKKKKKKKKNISVDK 184
REK KKKKK KK+KK+ +++K +VD
Sbjct: 38 KREKKKKKKKSEGEFFAEKKEKKEVSEQRKADQKAVDA 75
>gnl|CDD|138835 PRK12279, PRK12279, 50S ribosomal protein L22/unknown domain fusion
protein; Provisional.
Length = 311
Score = 32.7 bits (74), Expect = 0.39
Identities = 29/97 (29%), Positives = 41/97 (42%), Gaps = 19/97 (19%)
Query: 105 RTPPPALGE---------HTDYVLKDLLNYDETTIAKLKEKKILGLIERLTKNADPVCTR 155
RT P A G H + VL D +N E +A +K KK +K PV +
Sbjct: 85 RTLPRAKGSADQLFKRTTHLEIVLSDDVNEREKELAAIKAKK--------SKKPLPVEPK 136
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENE 192
K + KK K K + K +K +N VD + E +
Sbjct: 137 AKVETKKVAKPSKVEVKPVEKDEN--VDPELLKREQQ 171
>gnl|CDD|219978 pfam08701, GN3L_Grn1, GNL3L/Grn1 putative GTPase. Grn1 (yeast) and
GNL3L (human) are putative GTPases which are required
for growth and play a role in processing of nucleolar
pre-rRNA. This family contains a potential nuclear
localisation signal.
Length = 80
Score = 30.3 bits (69), Expect = 0.40
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 7/35 (20%)
Query: 155 REKAKKK---KKKKKKKKKKK----KKKKKKNISV 182
R K +KK +K +K+ KK K KKKK+ +
Sbjct: 3 RYKIEKKVAEHHRKLRKEAKKNPTWKSKKKKDPGI 37
Score = 26.4 bits (59), Expect = 9.3
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 160 KKKKKKKKKKKKKKKKKKKNISVDKNSIND 189
K +KK + +K +K+ KKN + D
Sbjct: 5 KIEKKVAEHHRKLRKEAKKNPTWKSKKKKD 34
>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed.
Length = 158
Score = 31.7 bits (72), Expect = 0.41
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 3/45 (6%)
Query: 154 TREKAKKKKKKKKKKKKKKK---KKKKKNISVDKNSINDENENKI 195
T EK K KK+KK+KK+KK K KK + + + K
Sbjct: 106 TEEKEAIKAKKEKKEKKEKKVAEKLAKKKSTKTTKNTTKKATKKT 150
Score = 30.5 bits (69), Expect = 1.3
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDK 184
EK +K+ K+ ++K+ K KK+K +K
Sbjct: 96 EKEQKEVSKETEEKEAIKAKKEKKEKKEK 124
>gnl|CDD|217884 pfam04086, SRP-alpha_N, Signal recognition particle, alpha subunit,
N-terminal. SRP is a complex of six distinct
polypeptides and a 7S RNA that is essential for
transferring nascent polypeptide chains that are
destined for export from the cell to the translocation
apparatus of the endoplasmic reticulum (ER) membrane.
SRP binds hydrophobic signal sequences as they emerge
from the ribosome, and arrests translation.
Length = 272
Score = 32.4 bits (74), Expect = 0.43
Identities = 8/26 (30%), Positives = 9/26 (34%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKN 179
A +K K K KK KK
Sbjct: 187 LSSTASSGDEKSPKSKAAPKKAGKKM 212
>gnl|CDD|221028 pfam11208, DUF2992, Protein of unknown function (DUF2992). This
bacterial family of proteins has no known function.
However, the cis-regulatory yjdF motif, just upstream
from the gene encoding the proteins for this family, is
a small non-coding RNA, Rfam:RF01764. The yjdF motif is
found in many Firmicutes, including Bacillus subtilis.
In most cases, it resides in potential 5' UTRs of
homologues of the yjdF gene whose function is unknown.
However, in Streptococcus thermophilus, a yjdF RNA motif
is associated with an operon whose protein products
synthesise nicotinamide adenine dinucleotide (NAD+).
Also, the S. thermophilus yjdF RNA lacks typical yjdF
motif consensus features downstream of and including the
P4 stem. Thus, if yjdF RNAs are riboswitch aptamers, the
S. thermophilus RNAs might sense a distinct compound
that structurally resembles the ligand bound by other
yjdF RNAs. On the ohter hand, perhaps these RNAs have an
alternative solution forming a similar binding site, as
is observed with some SAM riboswitches.
Length = 132
Score = 31.5 bits (72), Expect = 0.44
Identities = 11/30 (36%), Positives = 23/30 (76%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDK 184
E+ K++KKK+ K+KK+++K++K+ + K
Sbjct: 95 HERNKQEKKKRSKEKKEEEKERKRQLKQQK 124
Score = 30.3 bits (69), Expect = 0.88
Identities = 12/48 (25%), Positives = 25/48 (52%), Gaps = 14/48 (29%)
Query: 131 AKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
+EKK ++EK +++K++K++ K++KKK K +
Sbjct: 97 RNKQEKKKR--------------SKEKKEEEKERKRQLKQQKKKAKHR 130
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 32.8 bits (74), Expect = 0.48
Identities = 8/48 (16%), Positives = 20/48 (41%)
Query: 131 AKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
AK K ++ + K A+ +A K + + + + ++K +
Sbjct: 1320 AKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAE 1367
Score = 31.3 bits (70), Expect = 1.7
Identities = 7/32 (21%), Positives = 13/32 (40%)
Query: 147 KNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
K A E + + ++K + +KKK
Sbjct: 1342 KKAAEAAKAEAEAAADEAEAAEEKAEAAEKKK 1373
Score = 30.5 bits (68), Expect = 2.5
Identities = 10/48 (20%), Positives = 22/48 (45%), Gaps = 2/48 (4%)
Query: 143 ERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDE 190
E K AD ++KA++ KK + K + + + + ++ + E
Sbjct: 1325 EEAKKKADAA--KKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAE 1370
Score = 30.1 bits (67), Expect = 3.7
Identities = 11/48 (22%), Positives = 20/48 (41%)
Query: 131 AKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
AK K E K A+ +A + + ++K + +KKK+
Sbjct: 1327 AKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKE 1374
Score = 29.3 bits (65), Expect = 5.5
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 131 AKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKK----KKKKKKKKK 177
A+ K+++ + K A+ ++AKKK ++ KKK KK KKK
Sbjct: 1369 AEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKK 1419
Score = 29.0 bits (64), Expect = 8.7
Identities = 9/32 (28%), Positives = 19/32 (59%)
Query: 147 KNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
A+ ++A+ ++K + +KKK++ KKK
Sbjct: 1348 AKAEAEAAADEAEAAEEKAEAAEKKKEEAKKK 1379
Score = 29.0 bits (64), Expect = 8.9
Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 4/42 (9%)
Query: 143 ERLTKNADPVCTREKAKKKKKKKKK----KKKKKKKKKKKNI 180
+ K A+ ++AKKK ++ KK KKK ++ KK +
Sbjct: 1421 DEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEA 1462
Score = 29.0 bits (64), Expect = 9.2
Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 4/41 (9%)
Query: 142 IERLTKNADPVCTREKAKKKKKKKKKK----KKKKKKKKKK 178
+ K A+ ++AKKK ++ KKK KKK ++ KK
Sbjct: 1304 ADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKA 1344
>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381). This
domain is functionally uncharacterized. This domain is
found in eukaryotes. This presumed domain is typically
between 156 to 174 amino acids in length. This domain is
found associated with pfam07780, pfam01728.
Length = 154
Score = 31.5 bits (72), Expect = 0.52
Identities = 7/21 (33%), Positives = 16/21 (76%)
Query: 156 EKAKKKKKKKKKKKKKKKKKK 176
EK K K++K+++ ++K+K+
Sbjct: 125 EKELAKLKREKRRENERKQKE 145
Score = 31.1 bits (71), Expect = 0.58
Identities = 15/61 (24%), Positives = 36/61 (59%), Gaps = 4/61 (6%)
Query: 119 LKDLLNYDETTIAKLKEKKILGLIERLTK--NADPVCTREKAKKKKKKKKKKKKKKKKKK 176
++ LL D+ + +E+++ +E L + D + +E AK K++K+++ ++K+K+
Sbjct: 90 VRKLLGLDKKEKEEEEEEEVE--VEELDEEEQIDELLEKELAKLKREKRRENERKQKEIL 147
Query: 177 K 177
K
Sbjct: 148 K 148
Score = 28.8 bits (65), Expect = 3.4
Identities = 7/21 (33%), Positives = 16/21 (76%)
Query: 160 KKKKKKKKKKKKKKKKKKKNI 180
K+ K K++K+++ ++K+K I
Sbjct: 126 KELAKLKREKRRENERKQKEI 146
Score = 28.4 bits (64), Expect = 5.8
Identities = 6/24 (25%), Positives = 17/24 (70%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKN 179
++ K K++K+++ ++K+K+ K
Sbjct: 126 KELAKLKREKRRENERKQKEILKE 149
Score = 27.6 bits (62), Expect = 9.1
Identities = 6/25 (24%), Positives = 17/25 (68%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKN 179
K K++K+++ ++K+K+ K++
Sbjct: 128 LAKLKREKRRENERKQKEILKEQMK 152
>gnl|CDD|241486 cd13332, FERM_C_JAK1, Janus kinase 1 FERM domain C-lobe. JAK1 is a
tyrosine kinase protein essential in signaling type I
and type II cytokines. It interacts with the gamma chain
of type I cytokine receptors to elicit signals from the
IL-2 receptor family, the IL-4 receptor family, the
gp130 receptor family, ciliary neurotrophic factor
receptor (CNTF-R), neurotrophin-1 receptor (NNT-1R) and
Leptin-R). It also is involved in transducing a signal
by type I (IFN-alpha/beta) and type II (IFN-gamma)
interferons, and members of the IL-10 family via type II
cytokine receptors. JAK (also called Just Another
Kinase) is a family of intracellular, non-receptor
tyrosine kinases that transduce cytokine-mediated
signals via the JAK-STAT pathway. The JAK family in
mammals consists of 4 members: JAK1, JAK2, JAK3 and
TYK2. JAKs are composed of seven JAK homology (JH)
domains (JH1-JH7) . The C-terminal JH1 domain is the
main catalytic domain, followed by JH2, which is often
referred to as a pseudokinase domain, followed by
JH3-JH4 which is homologous to the SH2 domain, and
lastly JH5-JH7 which is a FERM domain. Named after
Janus, the two-faced Roman god of doorways, JAKs possess
two near-identical phosphate-transferring domains; one
which displays the kinase activity (JH1), while the
other negatively regulates the kinase activity of the
first (JH2). The FERM domain has a cloverleaf tripart
structure (FERM_N, FERM_M, FERM_C/N, alpha-, and
C-lobe/A-lobe,A-lobe, B-lobe, C-lobe/F1, F2, F3). The
C-lobe/F3 within the FERM domain is part of the PH
domain family. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs) , the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 198
Score = 31.7 bits (72), Expect = 0.53
Identities = 14/30 (46%), Positives = 16/30 (53%)
Query: 151 PVCTREKAKKKKKKKKKKKKKKKKKKKKNI 180
P T + KKK K KK K K KK + KK
Sbjct: 84 PATTAVEKKKKGKSKKNKLKGKKDEDKKKA 113
Score = 31.3 bits (71), Expect = 0.80
Identities = 12/29 (41%), Positives = 14/29 (48%)
Query: 151 PVCTREKAKKKKKKKKKKKKKKKKKKKKN 179
+K K K KK K K KK + KKK
Sbjct: 86 TTAVEKKKKGKSKKNKLKGKKDEDKKKAR 114
Score = 29.8 bits (67), Expect = 2.5
Identities = 14/39 (35%), Positives = 19/39 (48%)
Query: 139 LGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKK 177
G+ R V ++K K KK K K KK + KKK +
Sbjct: 76 TGISWRRKPATTAVEKKKKGKSKKNKLKGKKDEDKKKAR 114
Score = 28.3 bits (63), Expect = 7.5
Identities = 13/36 (36%), Positives = 15/36 (41%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDE 190
R K +KKKK K KK K K DK +
Sbjct: 81 RRKPATTAVEKKKKGKSKKNKLKGKKDEDKKKAREG 116
>gnl|CDD|149438 pfam08374, Protocadherin, Protocadherin. The structure of
protocadherins is similar to that of classic cadherins
(pfam00028), but particularly on the cytoplasmic domains
they also have some unique features. They are expressed
in a variety of organisms and are found in high
concentrations in the brain where they seem to be
localised mainly at cell-cell contact sites. Their
expression seems to be developmentally regulated.
Length = 223
Score = 32.1 bits (73), Expect = 0.55
Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 5/67 (7%)
Query: 148 NADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLYENFYSLDLA 207
D ++ K+KKKKK KKKK K ++V+++ +DE + S +L L
Sbjct: 79 TEDWFSPNQENKQKKKKKDKKKKSPKSLLLNFVTVEESKPDDEVHEQKSE-----TLSLP 133
Query: 208 LSSENPS 214
+ E S
Sbjct: 134 IELEEQS 140
>gnl|CDD|234048 TIGR02887, spore_ger_x_C, germination protein, Ger(x)C family.
Members of this protein family are restricted to
endospore-forming members of the Firmicutes lineage of
bacteria, including the genera Bacillus, Clostridium,
Thermoanaerobacter, Carboxydothermus, etc. Members are
nearly all predicted lipoproteins and belong to probable
transport operons, some of which have been characterized
as crucial to germination in response to alanine.
Members typically have been gene symbols gerKC, gerAC,
gerYC, etc [Transport and binding proteins, Amino acids,
peptides and amines, Cellular processes, Sporulation and
germination].
Length = 371
Score = 32.2 bits (74), Expect = 0.63
Identities = 20/65 (30%), Positives = 30/65 (46%), Gaps = 1/65 (1%)
Query: 120 KDLLNYDETTIAKLKEKKILGLIERL-TKNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
L E K EK+I LI++L DP+ ++ +K K KK KK + K
Sbjct: 293 PKNLKKIEKEAEKEIEKEIEQLIKKLQKYKIDPLGLGDELYRKHPKLWKKVKKNWDEIFK 352
Query: 179 NISVD 183
N+ +D
Sbjct: 353 NVDID 357
>gnl|CDD|240317 PTZ00217, PTZ00217, flap endonuclease-1; Provisional.
Length = 393
Score = 32.3 bits (74), Expect = 0.67
Identities = 23/66 (34%), Positives = 28/66 (42%), Gaps = 7/66 (10%)
Query: 135 EKKILGLIERLTKNADPVCTRE------KAKKKKKKKKKKKKKKKKKKKKNISVDKNSIN 188
E+++ IERL K A T+ A KK KK K K KKKKKK +
Sbjct: 320 EERVEKYIERL-KKAKTKKTQTRLDSFFTATKKPIKKSNSKAKLKKKKKKAGASAVPKSE 378
Query: 189 DENENK 194
E K
Sbjct: 379 TSQEAK 384
>gnl|CDD|216652 pfam01698, FLO_LFY, Floricaula / Leafy protein. This family
consists of various plant development proteins which are
homologues of floricaula (FLO) and Leafy (LFY) proteins
which are floral meristem identity proteins. Mutations
in the sequences of these proteins affect flower and
leaf development.
Length = 382
Score = 31.9 bits (73), Expect = 0.72
Identities = 10/36 (27%), Positives = 22/36 (61%)
Query: 158 AKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENEN 193
+KKK++KK+++K+ K + D + DE+++
Sbjct: 176 GHSSDSEKKKQRKKQRRKRSKELREDDDDDEDEDDD 211
Score = 31.1 bits (71), Expect = 1.2
Identities = 9/38 (23%), Positives = 21/38 (55%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENEN 193
+ +KKK++KK+++K+ K+ D + D++
Sbjct: 176 GHSSDSEKKKQRKKQRRKRSKELREDDDDDEDEDDDGE 213
Score = 28.4 bits (64), Expect = 9.1
Identities = 10/40 (25%), Positives = 22/40 (55%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENEN 193
+ +KKK++KK+++K+ K+ + D +D+ E
Sbjct: 175 PGHSSDSEKKKQRKKQRRKRSKELREDDDDDEDEDDDGEG 214
>gnl|CDD|215641 PLN03237, PLN03237, DNA topoisomerase 2; Provisional.
Length = 1465
Score = 32.1 bits (73), Expect = 0.74
Identities = 9/43 (20%), Positives = 16/43 (37%), Gaps = 4/43 (9%)
Query: 154 TREKAKKKKKKKK----KKKKKKKKKKKKNISVDKNSINDENE 192
REK ++ + + KK ++ KK K + E
Sbjct: 1178 AREKLQRAAARGESGAAKKVSRQAPKKPAPKKTTKKASESETT 1220
>gnl|CDD|227519 COG5192, BMS1, GTP-binding protein required for 40S ribosome
biogenesis [Translation, ribosomal structure and
biogenesis].
Length = 1077
Score = 32.4 bits (73), Expect = 0.77
Identities = 28/129 (21%), Positives = 50/129 (38%), Gaps = 8/129 (6%)
Query: 51 GVSFPYAQVNSISQV-FADEHIQDIKLVKEISHEKYGDIKIVGPAVAYSLTQPEVRTPPP 109
G++ YA N S +D L +EI + D + ++A + E+ PP
Sbjct: 955 GLTHSYAPQNDSSSEEMGYGAEEDYSLPREIESKLPLDKR----SIAVVSRRIELPVPPE 1010
Query: 110 ALGEHTDYVLKDLLNYDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKK 169
+H +KD + + + KE+ + + RE+ +K K+
Sbjct: 1011 CREKHE---IKDRIVKERIKDQEEKERMESLQRAKEEEIGKKEKEREQRIRKTIHDNYKE 1067
Query: 170 KKKKKKKKK 178
KK+ KKK
Sbjct: 1068 MAKKRLKKK 1076
>gnl|CDD|217840 pfam04006, Mpp10, Mpp10 protein. This family includes proteins
related to Mpp10 (M phase phosphoprotein 10). The U3
small nucleolar ribonucleoprotein (snoRNP) is required
for three cleavage events that generate the mature 18S
rRNA from the pre-rRNA. In Saccharomyces cerevisiae,
depletion of Mpp10, a U3 snoRNP-specific protein, halts
18S rRNA production and impairs cleavage at the three U3
snoRNP-dependent sites.
Length = 613
Score = 32.3 bits (73), Expect = 0.78
Identities = 13/40 (32%), Positives = 22/40 (55%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
RE+ KKK+K++ KK K KK++ I +K + +
Sbjct: 561 RERRKKKRKRRAAKKAVTKAKKERKIGKEKVDGVAKKSSS 600
Score = 30.0 bits (67), Expect = 3.3
Identities = 10/47 (21%), Positives = 22/47 (46%), Gaps = 2/47 (4%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLYEN 200
R ++++KKK+K++ KK K + I E + ++ +
Sbjct: 555 DRTDKNRERRKKKRKRRAAKKAVTKA--KKERKIGKEKVDGVAKKSS 599
>gnl|CDD|218538 pfam05285, SDA1, SDA1. This family consists of several SDA1
protein homologues. SDA1 is a Saccharomyces cerevisiae
protein which is involved in the control of the actin
cytoskeleton. The protein is essential for cell
viability and is localised in the nucleus.
Length = 317
Score = 31.5 bits (72), Expect = 0.80
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 155 REKAKKKKKKKKKKKK---KKKKKKKKNISVDKNSINDENENKISL 197
REK +K KK K+ K K+K +KKN + + + K SL
Sbjct: 254 REKFGSRKGKKDKEGKSTTNKEKARKKNFMMTLHKKRVRGKQKRSL 299
>gnl|CDD|240578 cd12951, RRP7_Rrp7A, RRP7 domain ribosomal RNA-processing protein 7
homolog A (Rrp7A) and similar proteins. The family
corresponds to the RRP7 domain of Rrp7A, also termed
gastric cancer antigen Zg14, and similar proteins which
are yeast ribosomal RNA-processing protein 7 (Rrp7p)
homologs mainly found in Metazoans. The cellular
function of Rrp7A remains unclear currently. Rrp7A
harbors an N-terminal RNA recognition motif (RRM), also
termed RBD (RNA binding domain) or RNP
(ribonucleoprotein domain), and a C-terminal RRP7
domain.
Length = 129
Score = 30.3 bits (69), Expect = 0.82
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKN 179
T K K +K+KKKKKKK+ KN
Sbjct: 64 TARKESVAAKAAEKEKKKKKKKELKN 89
Score = 30.3 bits (69), Expect = 1.1
Identities = 13/31 (41%), Positives = 19/31 (61%)
Query: 147 KNADPVCTREKAKKKKKKKKKKKKKKKKKKK 177
K P R+++ K +K+KKKKKKK+ K
Sbjct: 58 KGRRPKTARKESVAAKAAEKEKKKKKKKELK 88
Score = 29.2 bits (66), Expect = 2.3
Identities = 15/75 (20%), Positives = 28/75 (37%), Gaps = 18/75 (24%)
Query: 124 NYDETTIAKLKEKKILG--------LIERLTKNADPVCTREKAKKKKKKKKKKKKKK--- 172
YD+ + +EK+ + + + A K +K+KKKKKKK
Sbjct: 29 EYDKEEEEEKEEKEKEAEPDEDGWVTVTKKGRRPKTARKESVAAKAAEKEKKKKKKKELK 88
Query: 173 -------KKKKKKNI 180
++ K+ +
Sbjct: 89 NFYRFQIRESKRNEL 103
>gnl|CDD|227925 COG5638, COG5638, Uncharacterized conserved protein [Function
unknown].
Length = 622
Score = 32.1 bits (72), Expect = 0.87
Identities = 20/78 (25%), Positives = 31/78 (39%), Gaps = 4/78 (5%)
Query: 124 NYDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVD 183
+ ETTI KL K L ER + + K K KK+ KK KK +++
Sbjct: 428 DKLETTIEKLDRK----LRERQENRKERQLKKTKDDSDVDLKDKKESINKKNKKGKHAIE 483
Query: 184 KNSINDENENKISLYENF 201
+ + + E I +
Sbjct: 484 RTAASKEELELIKADDED 501
>gnl|CDD|214661 smart00435, TOPEUc, DNA Topoisomerase I (eukaryota). DNA
Topoisomerase I (eukaryota), DNA topoisomerase V,
Vaccina virus topoisomerase, Variola virus
topoisomerase, Shope fibroma virus topoisomeras.
Length = 391
Score = 31.6 bits (72), Expect = 0.88
Identities = 22/74 (29%), Positives = 35/74 (47%), Gaps = 11/74 (14%)
Query: 132 KLKEKKILGLIERLTKNADP-----VCTREKAKKKKKKKKKKKKKKKKKKKK------NI 180
+ KK++ L E ++ EK + K+KKK+KKK++KKKK+ I
Sbjct: 293 LKRLKKMILLFEMISDLKRKLKSKFERDNEKLDAEVKEKKKEKKKEEKKKKQIERLEERI 352
Query: 181 SVDKNSINDENENK 194
+ D+ ENK
Sbjct: 353 EKLEVQATDKEENK 366
Score = 30.0 bits (68), Expect = 2.9
Identities = 21/75 (28%), Positives = 31/75 (41%), Gaps = 9/75 (12%)
Query: 127 ETTIAKLKEK--KILGLIERLTKNADPVCTREKAKKKKKKK------KKKKKKKKKKKKK 178
E ++ KL+EK + ++RL K K+K K K K + K+KKK+K
Sbjct: 276 EKSMEKLQEKIKALKYQLKRLKKMILLFEMISDLKRKLKSKFERDNEKLDAEVKEKKKEK 335
Query: 179 NI-SVDKNSINDENE 192
K I E
Sbjct: 336 KKEEKKKKQIERLEE 350
>gnl|CDD|184936 PRK14973, PRK14973, DNA topoisomerase I; Provisional.
Length = 936
Score = 31.7 bits (72), Expect = 0.92
Identities = 23/86 (26%), Positives = 41/86 (47%), Gaps = 1/86 (1%)
Query: 126 DETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKN 185
D TI K EKKI+GLI++L K AD V + + K+ + + + +D+
Sbjct: 74 DADTIKKPTEKKIVGLIQKLAKKADRVTIATDFDTEGELIGKEAYELVRAVNPKVPIDRA 133
Query: 186 SINDENENKI-SLYENFYSLDLALSS 210
+ + +I + + LD AL++
Sbjct: 134 RFSAITKEEIVTAFAEPTDLDFALAA 159
>gnl|CDD|234533 TIGR04285, nucleoid_noc, nucleoid occlusion protein. This model
describes nucleoid occlusion protein, a close homolog to
ParB chromosome partitioning proteins including Spo0J in
Bacillus subtilis. Its gene often is located near the
gene for the Spo0J ortholog. This protein bind a
specific DNA sequence and blocks cytokinesis from
happening until chromosome segregation is complete.
Length = 255
Score = 31.3 bits (72), Expect = 0.93
Identities = 15/37 (40%), Positives = 23/37 (62%), Gaps = 2/37 (5%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKK--KNISVDKNSIN 188
T E KK +K +K KKKKK++K K++ + N+I
Sbjct: 187 TEELIKKLLEKPEKPKKKKKRRKGFSKDVRIAVNTIK 223
>gnl|CDD|218078 pfam04419, 4F5, 4F5 protein family. Members of this family are
short proteins that are rich in aspartate, glutamate,
lysine and arginine. Although the function of these
proteins is unknown, they are found to be ubiquitously
expressed.
Length = 38
Score = 27.9 bits (63), Expect = 0.94
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
RE+ KK KKKKK K + K
Sbjct: 11 RERNAKKAAKKKKKGAKSQLKAAA 34
>gnl|CDD|218550 pfam05311, Baculo_PP31, Baculovirus 33KDa late protein (PP31).
Autographa californica nuclear polyhedrosis virus
(AcMNPV) pp31 is a nuclear phosphoprotein that
accumulates in the virogenic stroma, which is the viral
replication centre in the infected-cell nucleus, binds
to DNA, and serves as a late expression factor.
Length = 267
Score = 31.2 bits (71), Expect = 0.95
Identities = 12/44 (27%), Positives = 19/44 (43%)
Query: 149 ADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENE 192
K K KK KK KK+K+K++ N ++D +
Sbjct: 218 PQSSSPSRKRKAPKKVAKKVAAAKKRKQKRSPPPPFNMVSDNTD 261
Score = 28.9 bits (65), Expect = 5.4
Identities = 11/38 (28%), Positives = 17/38 (44%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENEN 193
++K+K KK KK KK+K N ++N
Sbjct: 222 SPSRKRKAPKKVAKKVAAAKKRKQKRSPPPPFNMVSDN 259
>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer
membranes [Cell envelope biogenesis, outer membrane].
Length = 244
Score = 31.3 bits (71), Expect = 1.0
Identities = 13/39 (33%), Positives = 15/39 (38%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
EK K +KK KK K K K K K K +
Sbjct: 86 EKPKPEKKPKKPKPKPKPKPKPKPKVKPQPKPKKPPSKT 124
Score = 29.0 bits (65), Expect = 5.7
Identities = 14/36 (38%), Positives = 17/36 (47%)
Query: 149 ADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDK 184
+P + K K K +KK KK K K K K K K
Sbjct: 77 PEPTPPKPKEKPKPEKKPKKPKPKPKPKPKPKPKVK 112
>gnl|CDD|219913 pfam08576, DUF1764, Eukaryotic protein of unknown function
(DUF1764). This is a family of eukaryotic proteins of
unknown function. This family contains many hypothetical
proteins.
Length = 98
Score = 29.7 bits (67), Expect = 1.0
Identities = 14/63 (22%), Positives = 28/63 (44%), Gaps = 2/63 (3%)
Query: 134 KEKKILGLIERLTKNA--DPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDEN 191
KE+K ++ + + R+K KK+ K + K KK +KK + +E+
Sbjct: 1 KEEKKNEKTDKRDIDDIFSNIKKRKKKKKRTAKTARPKATKKGQKKDKKKDEFPEFPEES 60
Query: 192 ENK 194
+ +
Sbjct: 61 KRR 63
>gnl|CDD|222466 pfam13945, NST1, Splicing factor, salt tolerance regulator. NST1
is a family of proteins that seem to be involved,
directly or indirectly, in the salt sensitivity of some
cellular functions in yeast. These proteins also
interact with the splicing factor Msl1p.
Length = 189
Score = 30.7 bits (69), Expect = 1.1
Identities = 14/56 (25%), Positives = 19/56 (33%), Gaps = 11/56 (19%)
Query: 164 KKKKKKKKKKKKKKKNISVDKNSINDENENKISLYENFYSLDLALSSENPSLPLSN 219
K KKKKKK+ K + + S N N S A+ + L
Sbjct: 32 KSKKKKKKRSKATSPSHNASDQSTN-----------NVMSTPSAILARPQPLSYPF 76
Score = 29.9 bits (67), Expect = 2.2
Identities = 10/27 (37%), Positives = 12/27 (44%)
Query: 162 KKKKKKKKKKKKKKKKKNISVDKNSIN 188
K KKKKKK+ K N S +
Sbjct: 32 KSKKKKKKRSKATSPSHNASDQSTNNV 58
>gnl|CDD|222869 PHA02550, 32, single-stranded DNA binding protein; Provisional.
Length = 304
Score = 31.2 bits (71), Expect = 1.1
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 151 PVC--TREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLYE 199
PVC K++ K +K+K NI V K+ ENE K+ Y
Sbjct: 90 PVCQYISNNDLYNTGKEEYKLRKRKTSYWANILVIKDPAAPENEGKVFKYR 140
>gnl|CDD|235778 PRK06319, PRK06319, DNA topoisomerase I/SWI domain fusion protein;
Validated.
Length = 860
Score = 31.7 bits (72), Expect = 1.1
Identities = 13/25 (52%), Positives = 15/25 (60%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKK 178
T+ KA K KKK K K KK KK+
Sbjct: 760 TKGKAAKTVKKKSKAKSKKTTKKRA 784
Score = 30.6 bits (69), Expect = 2.4
Identities = 13/40 (32%), Positives = 18/40 (45%)
Query: 143 ERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISV 182
E+ TK + + K KKK K K KK KK+ +
Sbjct: 748 EKKTKAKKKSASTKGKAAKTVKKKSKAKSKKTTKKRAGPL 787
Score = 29.4 bits (66), Expect = 6.0
Identities = 12/32 (37%), Positives = 14/32 (43%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDKN 185
T+ K K K K K KKK K K+ K
Sbjct: 751 TKAKKKSASTKGKAAKTVKKKSKAKSKKTTKK 782
Score = 29.0 bits (65), Expect = 6.9
Identities = 12/31 (38%), Positives = 16/31 (51%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDKNS 186
+K K KKK K K K KKK+ + K +
Sbjct: 749 KKTKAKKKSASTKGKAAKTVKKKSKAKSKKT 779
Score = 29.0 bits (65), Expect = 7.8
Identities = 13/28 (46%), Positives = 14/28 (50%)
Query: 151 PVCTREKAKKKKKKKKKKKKKKKKKKKK 178
P + KAKKK K K K KKK K
Sbjct: 746 PYEKKTKAKKKSASTKGKAAKTVKKKSK 773
Score = 29.0 bits (65), Expect = 8.2
Identities = 11/29 (37%), Positives = 11/29 (37%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDK 184
EK K KKK K K K KK
Sbjct: 748 EKKTKAKKKSASTKGKAAKTVKKKSKAKS 776
>gnl|CDD|218752 pfam05793, TFIIF_alpha, Transcription initiation factor IIF, alpha
subunit (TFIIF-alpha). Transcription initiation factor
IIF, alpha subunit (TFIIF-alpha) or RNA polymerase
II-associating protein 74 (RAP74) is the large subunit
of transcription factor IIF (TFIIF), which is essential
for accurate initiation and stimulates elongation by RNA
polymerase II.
Length = 528
Score = 31.5 bits (71), Expect = 1.2
Identities = 15/38 (39%), Positives = 21/38 (55%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENE 192
EK+KKKKKK K KKK KK D ++ +++
Sbjct: 238 EEKSKKKKKKLAKNKKKLDDDKKGKRGGDDDADEYDSD 275
Score = 28.8 bits (64), Expect = 9.1
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDEN 191
EK +++ KK KK KK K KKN +S + ++
Sbjct: 326 EKNEEEGGLSKKGKKLKKLKGKKNGLDKDDSDSGDD 361
>gnl|CDD|235501 PRK05559, PRK05559, DNA topoisomerase IV subunit B; Reviewed.
Length = 631
Score = 31.6 bits (73), Expect = 1.2
Identities = 12/30 (40%), Positives = 15/30 (50%), Gaps = 3/30 (10%)
Query: 141 LIERLTKNADPVCTREKAKKKKKKKKKKKK 170
L E+ K A R +A KK K+KKK
Sbjct: 372 LAEKAIKAAQ---ARLRAAKKVKRKKKTSG 398
>gnl|CDD|151665 pfam11223, DUF3020, Protein of unknown function (DUF3020). This
family of fungal proteins is conserved towards the
C-terminus of HMG domains. The function is not known.
Length = 49
Score = 28.3 bits (63), Expect = 1.2
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 3/40 (7%)
Query: 154 TREKAKKKKKKKKKK---KKKKKKKKKKNISVDKNSINDE 190
RE ++ K + KKK KKK K S +K++ D+
Sbjct: 8 WREANSERNKDNDLRSRVKKKAKKKFGKEDSKEKDAYIDD 47
>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional.
Length = 651
Score = 31.5 bits (72), Expect = 1.2
Identities = 16/54 (29%), Positives = 31/54 (57%), Gaps = 10/54 (18%)
Query: 126 DETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKN 179
D ++ KL +K+ L E+ ++A K++K+ +K KK+++KKKK+
Sbjct: 540 DGPSVWKLDDKEEL-QREKE---------EKEALKEQKRLRKLKKQEEKKKKEL 583
>gnl|CDD|234707 PRK00270, rpsU, 30S ribosomal protein S21; Reviewed.
Length = 64
Score = 28.3 bits (64), Expect = 1.4
Identities = 9/22 (40%), Positives = 16/22 (72%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKK 177
EK +K+K+KK +K+++KK
Sbjct: 39 EKPSEKRKRKKAAARKRRRKKL 60
Score = 27.9 bits (63), Expect = 1.8
Identities = 7/21 (33%), Positives = 15/21 (71%)
Query: 159 KKKKKKKKKKKKKKKKKKKKN 179
K+K+KK +K+++KK ++
Sbjct: 44 KRKRKKAAARKRRRKKLAREE 64
Score = 27.5 bits (62), Expect = 2.8
Identities = 8/21 (38%), Positives = 15/21 (71%)
Query: 159 KKKKKKKKKKKKKKKKKKKKN 179
K +K+K+KK +K+++KK
Sbjct: 40 KPSEKRKRKKAAARKRRRKKL 60
Score = 26.4 bits (59), Expect = 7.2
Identities = 8/20 (40%), Positives = 14/20 (70%)
Query: 156 EKAKKKKKKKKKKKKKKKKK 175
EK K+KK +K+++KK +
Sbjct: 43 EKRKRKKAAARKRRRKKLAR 62
Score = 26.0 bits (58), Expect = 9.4
Identities = 9/24 (37%), Positives = 17/24 (70%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
RE +K +K+K+KK +K+++K
Sbjct: 35 REFYEKPSEKRKRKKAAARKRRRK 58
>gnl|CDD|192718 pfam11176, DUF2962, Protein of unknown function (DUF2962). This
eukaryotic family of proteins has no known function.
Length = 155
Score = 30.3 bits (69), Expect = 1.4
Identities = 9/47 (19%), Positives = 24/47 (51%), Gaps = 5/47 (10%)
Query: 158 AKKKKKKKKKKKKKKKKKKKKNISVDK-----NSINDENENKISLYE 199
+ + K +KKK ++ +K+++ +D+ I ++ + +L E
Sbjct: 24 NRATLRDDKLEKKKAERAEKRSLELDRLFFFQEQIKEDEKEPFTLEE 70
>gnl|CDD|227446 COG5116, RPN2, 26S proteasome regulatory complex component
[Posttranslational modification, protein turnover,
chaperones].
Length = 926
Score = 31.5 bits (71), Expect = 1.4
Identities = 10/65 (15%), Positives = 19/65 (29%), Gaps = 8/65 (12%)
Query: 147 KNADPVCT---REKAKKKKKKKKK-----KKKKKKKKKKKNISVDKNSINDENENKISLY 198
K V + + A+ K+K K+K + K + + +E
Sbjct: 781 KVNTAVLSTTIKAAARAKQKPKEKGPNDKEIKIESPSVETEGERCTIKQREEKGIDAPAI 840
Query: 199 ENFYS 203
N
Sbjct: 841 LNVKK 845
>gnl|CDD|177089 CHL00189, infB, translation initiation factor 2; Provisional.
Length = 742
Score = 31.3 bits (71), Expect = 1.5
Identities = 16/38 (42%), Positives = 19/38 (50%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
K +K KKK K KKKKK S D+ D N+ K
Sbjct: 121 KTEKLKKKITVNKSTNKKKKKVLSSKDELIKYDNNKPK 158
Score = 29.8 bits (67), Expect = 3.8
Identities = 10/37 (27%), Positives = 13/37 (35%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDE 190
+ K K K KKKKK K + N+
Sbjct: 123 EKLKKKITVNKSTNKKKKKVLSSKDELIKYDNNKPKS 159
>gnl|CDD|220646 pfam10240, DUF2464, Protein of unknown function (DUF2464). This is
a family of proteins conserved from worms to humans.
Members have been annotated as FAM125A proteins, but
their function is unknown.
Length = 251
Score = 30.8 bits (70), Expect = 1.5
Identities = 17/68 (25%), Positives = 27/68 (39%), Gaps = 13/68 (19%)
Query: 281 KKSVCVDFKTPEGQQIIKDLAKQ--CDVLVENFVPGKLDRLNLGYKHLSEINSQLIYCSV 338
KK +CV + A+ D+++ GK + GY + EIN LI+C
Sbjct: 94 KKRLCVKL-------SPRGSAETAVTDIILS----GKTKQAPPGYTLIGEINGLLIWCKK 142
Query: 339 TGFGSKGP 346
+ P
Sbjct: 143 GSVPAPPP 150
>gnl|CDD|192292 pfam09429, Wbp11, WW domain binding protein 11. The WW domain is a
small protein module with a triple-stranded beta-sheet
fold. This is a family of WW domain binding proteins.
Length = 78
Score = 28.8 bits (65), Expect = 1.5
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 4/40 (10%)
Query: 146 TKNADPVCTREKAKKKKKKKKKKKKKKK----KKKKKNIS 181
K+ +P K +KKK+ KK K +++ K KKN
Sbjct: 1 KKSLNPTDAYRKEQKKKELKKNKAERQARREAKLAKKNPD 40
>gnl|CDD|217023 pfam02414, Borrelia_orfA, Borrelia ORF-A. This protein is encoded
by an open reading frame in plasmid borne DNA repeats of
Borrelia species. This protein is known as ORF-A. The
function of this putative protein is unknown.
Length = 285
Score = 30.8 bits (70), Expect = 1.6
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 3/49 (6%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDEN---ENKISLYENFY 202
K KK ++ KK+ KKK KN SV+KN + NK E+
Sbjct: 101 KEKKIERFKKRVNAYFKKKSNKNGSVEKNECINNKNNVINKKIKEESKK 149
Score = 28.5 bits (64), Expect = 7.0
Identities = 23/68 (33%), Positives = 29/68 (42%), Gaps = 2/68 (2%)
Query: 113 EHTDYVLKDLLNYDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKK 172
E Y K + + + K K K +IE+ K D K KK KKKKK KK
Sbjct: 218 EKKGYKKKQIEKFFQKIYEKYK-NKPHFIIEK-NKYKDLNKIIGKFKKSFKKKKKNSKKN 275
Query: 173 KKKKKKNI 180
+ K NI
Sbjct: 276 YENIKINI 283
>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain. This domain is
found at the N terminus of SMC proteins. The SMC
(structural maintenance of chromosomes) superfamily
proteins have ATP-binding domains at the N- and
C-termini, and two extended coiled-coil domains
separated by a hinge in the middle. The eukaryotic SMC
proteins form two kind of heterodimers: the SMC1/SMC3
and the SMC2/SMC4 types. These heterodimers constitute
an essential part of higher order complexes, which are
involved in chromatin and DNA dynamics. This family also
includes the RecF and RecN proteins that are involved in
DNA metabolism and recombination.
Length = 1162
Score = 31.1 bits (70), Expect = 1.7
Identities = 15/71 (21%), Positives = 31/71 (43%), Gaps = 1/71 (1%)
Query: 127 ETTIAKLKEKKILGLI-ERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKN 185
E KL+E+++ L E ++ + + ++K K+ +K+ KK +K+ +
Sbjct: 278 EEKEKKLQEEELKLLAKEEEELKSELLKLERRKVDDEEKLKESEKELKKLEKELKKEKEE 337
Query: 186 SINDENENKIS 196
E E K
Sbjct: 338 IEELEKELKEL 348
Score = 29.2 bits (65), Expect = 6.8
Identities = 15/87 (17%), Positives = 32/87 (36%)
Query: 125 YDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDK 184
E K + KK++ E L + + + + K K++ KK + + K+K ++
Sbjct: 166 SREKRKKKERLKKLIEETENLAELIIDLEELKLQELKLKEQAKKALEYYQLKEKLELEEE 225
Query: 185 NSINDENENKISLYENFYSLDLALSSE 211
N + + + L E
Sbjct: 226 NLLYLDYLKLNEERIDLLQELLRDEQE 252
>gnl|CDD|221185 pfam11719, Drc1-Sld2, DNA replication and checkpoint protein.
Genome duplication is precisely regulated by
cyclin-dependent kinases CDKs, which bring about the
onset of S phase by activating replication origins and
then prevent relicensing of origins until mitosis is
completed. The optimum sequence motif for CDK
phosphorylation is S/T-P-K/R-K/R, and Drc1-Sld2 is found
to have at least 11 potential phosphorylation sites.
Drc1 is required for DNA synthesis and S-M replication
checkpoint control. Drc1 associates with Cdc2 and is
phosphorylated at the onset of S phase when Cdc2 is
activated. Thus Cdc2 promotes DNA replication by
phosphorylating Drc1 and regulating its association with
Cut5. Sld2 and Sld3 represent the minimal set of S-CDK
substrates required for DNA replication.
Length = 397
Score = 30.9 bits (70), Expect = 1.8
Identities = 13/53 (24%), Positives = 22/53 (41%)
Query: 126 DETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
+E K D E++K++ +KK+K KKK +K+K
Sbjct: 318 EEIPKLDEKSLSEFLGYMGGIDEDDEDEDDEESKEEVEKKQKVKKKPRKRKVN 370
Score = 29.0 bits (65), Expect = 5.8
Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)
Query: 130 IAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKK--KKKKKKKKKKKKNISVDKN 185
I KL EK L E L E ++ K++ KK+K KKK +K+ ++ N
Sbjct: 320 IPKLDEKS---LSEFLGYMGGIDEDDEDEDDEESKEEVEKKQKVKKKPRKRKVNPVSN 374
>gnl|CDD|176075 cd08693, C2_PI3K_class_I_beta_delta, C2 domain present in class I
beta and delta phosphatidylinositol 3-kinases (PI3Ks).
PI3Ks (AKA phosphatidylinositol (PtdIns) 3-kinases)
regulate cell processes such as cell growth,
differentiation, proliferation, and motility. PI3Ks
work on phosphorylation of phosphatidylinositol,
phosphatidylinositide (4)P (PtdIns (4)P),2 or
PtdIns(4,5)P2. Specifically they phosphorylate the D3
hydroxyl group of phosphoinositol lipids on the inositol
ring. There are 3 classes of PI3Ks based on structure,
regulation, and specificity. All classes contain a C2
domain, a PIK domain, and a kinase catalytic domain.
The members here are class I, beta and delta isoforms of
PI3Ks and contain both a Ras-binding domain and a
p85-binding domain. Class II PI3Ks contain both of
these as well as a PX domain, and a C-terminal C2 domain
containing a nuclear localization signal. C2 domains
fold into an 8-standed beta-sandwich that can adopt 2
structural arrangements: Type I and Type II,
distinguished by a circular permutation involving their
N- and C-terminal beta strands. Many C2 domains are
Ca2+-dependent membrane-targeting modules that bind a
wide variety of substances including bind phospholipids,
inositol polyphosphates, and intracellular proteins.
Most C2 domain proteins are either signal transduction
enzymes that contain a single C2 domain, such as protein
kinase C, or membrane trafficking proteins which contain
at least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of piccolo/aczonin
and intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. Members have a type-I
topology.
Length = 173
Score = 30.0 bits (68), Expect = 2.0
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 159 KKKKKKKKKKKKKKKKKKKKNIS 181
KK K K+ +K + KKKKKK+ +
Sbjct: 86 SKKAKGKRSRKNQTKKKKKKDDN 108
Score = 29.2 bits (66), Expect = 3.7
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKK 177
E +KK K K+ +K + KKKKKK
Sbjct: 84 EVSKKAKGKRSRKNQTKKKKKK 105
Score = 28.0 bits (63), Expect = 8.5
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 155 REKAKKKKKKKKKKKKKKKK 174
+KAK K+ +K + KKKKKK
Sbjct: 86 SKKAKGKRSRKNQTKKKKKK 105
>gnl|CDD|213988 cd07433, PHP_PolIIIA_DnaE1, Polymerase and Histidinol Phosphatase
domain of alpha-subunit of bacterial polymerase III
DnaE1. PolIIIAs that contain an N-terminal PHP domain
have been classified into four basic groups based on
genome composition, phylogenetic, and domain structural
analysis: polC, dnaE1, dnaE2, and dnaE3. The PHP (also
called histidinol phosphatase-2/HIS2) domain is
associated with several types of DNA polymerases, such
as PolIIIA and family X DNA polymerases, stand alone
histidinol phosphate phosphatases (HisPPases), and a
number of uncharacterized protein families. DNA
polymerase III holoenzyme is one of the five eubacterial
DNA polymerases that are responsible for the replication
of the DNA duplex. PolIIIA core enzyme catalyzes the
reaction for polymerizing both DNA strands. dnaE1 is the
longest compared to dnaE2 and dnaE3. A unique motif was
also identified in dnaE1 and dnaE3 genes.
Length = 277
Score = 30.5 bits (70), Expect = 2.0
Identities = 20/79 (25%), Positives = 33/79 (41%), Gaps = 17/79 (21%)
Query: 304 CDVLVEN-FVPGKLDRLNL------GYKHLSEINSQLIYCSVTGFGSKGPYKDRPGYDI- 355
D+ V N + RL L GYK+L+E+ S+ + +G P +
Sbjct: 64 ADLNVANPDDADEPFRLTLLAQNEQGYKNLTELISR-------AY-LEGQRNGGPHIKLE 115
Query: 356 -IAASIGGLLHITGHPDGP 373
+A GL+ ++G DG
Sbjct: 116 WLAEYSEGLIALSGGRDGD 134
>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682). The
members of this family are all hypothetical eukaryotic
proteins of unknown function. One member is described as
being an adipocyte-specific protein, but no evidence of
this was found.
Length = 322
Score = 30.3 bits (69), Expect = 2.0
Identities = 18/77 (23%), Positives = 39/77 (50%), Gaps = 11/77 (14%)
Query: 125 YDETTIAKLKE---KKILGL----IERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKK 177
D+ KL +K+ E++ K A+ E+ ++ ++KK++KKK++++ K
Sbjct: 245 VDKLANLKLSPEVLRKVDKTREEEEEKILKAAE----EERQEEAQEKKEEKKKEEREAKL 300
Query: 178 KNISVDKNSINDENENK 194
+S ++ +E E K
Sbjct: 301 AKLSPEEQRKLEEKERK 317
>gnl|CDD|227238 COG4901, COG4901, Ribosomal protein S25 [Translation, ribosomal
structure and biogenesis].
Length = 107
Score = 29.1 bits (65), Expect = 2.1
Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 5/49 (10%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDK---NSINDE--NENKISLYE 199
KA K KKK KKKKK++ ++ ++VD+ + I E E ++ Y
Sbjct: 16 AKAGTAKDKKKWSKKKKKEEARRAVTVDEELLDKIRKEVPRERVVTPYV 64
Score = 27.2 bits (60), Expect = 7.4
Identities = 12/28 (42%), Positives = 13/28 (46%)
Query: 151 PVCTREKAKKKKKKKKKKKKKKKKKKKK 178
P K KK +K K K KKK KK
Sbjct: 3 PKSQLSKEKKAEKAKAGTAKDKKKWSKK 30
Score = 27.2 bits (60), Expect = 7.5
Identities = 13/26 (50%), Positives = 15/26 (57%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNI 180
+KA+K K K KKK KKKKK
Sbjct: 10 EKKAEKAKAGTAKDKKKWSKKKKKEE 35
>gnl|CDD|236944 PRK11642, PRK11642, exoribonuclease R; Provisional.
Length = 813
Score = 30.9 bits (70), Expect = 2.1
Identities = 11/28 (39%), Positives = 12/28 (42%)
Query: 150 DPVCTREKAKKKKKKKKKKKKKKKKKKK 177
D EK K K KK +K KK K
Sbjct: 766 DSAFRGEKKAKPKAAKKDARKAKKPSAK 793
Score = 30.1 bits (68), Expect = 3.8
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 158 AKKKKKKKKKKKKKKKKKKKKNIS 181
A + +KK K K KK +K K S
Sbjct: 768 AFRGEKKAKPKAAKKDARKAKKPS 791
Score = 29.3 bits (66), Expect = 5.1
Identities = 10/24 (41%), Positives = 12/24 (50%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
R + K K K KK +K KK K
Sbjct: 770 RGEKKAKPKAAKKDARKAKKPSAK 793
Score = 29.3 bits (66), Expect = 6.5
Identities = 11/29 (37%), Positives = 13/29 (44%)
Query: 147 KNADPVCTREKAKKKKKKKKKKKKKKKKK 175
N +P KK K K KK +K KK
Sbjct: 761 VNFEPDSAFRGEKKAKPKAAKKDARKAKK 789
Score = 28.9 bits (65), Expect = 6.9
Identities = 8/24 (33%), Positives = 12/24 (50%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
++ K KK +K KK K +K
Sbjct: 773 KKAKPKAAKKDARKAKKPSAKTQK 796
Score = 28.9 bits (65), Expect = 7.7
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNIS 181
+KAK K KK +K KK K + I+
Sbjct: 773 KKAKPKAAKKDARKAKKPSAKTQKIA 798
>gnl|CDD|236335 PRK08724, fliD, flagellar capping protein; Validated.
Length = 673
Score = 30.6 bits (69), Expect = 2.1
Identities = 14/48 (29%), Positives = 23/48 (47%)
Query: 166 KKKKKKKKKKKKKNISVDKNSINDENENKISLYENFYSLDLALSSENP 213
K K K K + + D+ S+ ++ E ++ Y FY ALS +P
Sbjct: 470 KGKTDKNKPPAEIGVEYDRQSVRNDIEQFVAAYNQFYQTSKALSGVDP 517
>gnl|CDD|220730 pfam10395, Utp8, Utp8 family. Utp8 is an essential component of
the nuclear tRNA export machinery in Saccharomyces
cerevisiae. It is a tRNA binding protein that acts at a
step between tRNA maturation /aminoacylation, and
translocation of the tRNA across the nuclear pore
complex.
Length = 669
Score = 30.8 bits (70), Expect = 2.1
Identities = 15/63 (23%), Positives = 25/63 (39%), Gaps = 1/63 (1%)
Query: 122 LLNYDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNIS 181
L N++ TI KL I +E LT+N+ + ++ KK K +K
Sbjct: 596 LFNWELETIEKL-SSIIDSQVEVLTRNSYLLTLVDQVLLSNSPSSKKALSSKSIEKSASP 654
Query: 182 VDK 184
+
Sbjct: 655 LSA 657
>gnl|CDD|233352 TIGR01310, L7, 60S ribosomal protein L7, eukaryotic. This model
describes the eukaryotic 60S (cytosolic) ribosomal
protein L7 and paralogs that may or may not also be L7.
Human, Drosophila, and Arabidopsis all have both a
typical L7 and an L7-related paralog. This family is
designated subfamily rather than equivalog to reflect
these uncharacterized paralogs. Members of this family
average ~ 250 residues in length, somewhat longer than
the archaeal L30P/L7E homolog (~ 155 residues) and much
longer than the related bacterial/organellar form (~ 60
residues).
Length = 235
Score = 30.0 bits (68), Expect = 2.1
Identities = 15/35 (42%), Positives = 18/35 (51%)
Query: 158 AKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENE 192
AK+ K KKK KKK+K K+ S K E E
Sbjct: 18 AKQAKAKKKANKKKRKIYFKRAESFVKEYRKAERE 52
Score = 28.9 bits (65), Expect = 5.4
Identities = 10/25 (40%), Positives = 13/25 (52%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKK 178
+ K+ K KKK KKK+K K
Sbjct: 13 LAVQVAKQAKAKKKANKKKRKIYFK 37
>gnl|CDD|222447 pfam13904, DUF4207, Domain of unknown function (DUF4207). This
family is found in eukaryotes; it has several conserved
tryptophan residues. The function is not known.
Length = 261
Score = 30.1 bits (68), Expect = 2.2
Identities = 5/27 (18%), Positives = 24/27 (88%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNIS 181
+++ K++++++K++KK+++++++K +
Sbjct: 194 QQQQKREEERRKQRKKQQEEEERKQKA 220
>gnl|CDD|184722 PRK14514, PRK14514, ATP-dependent Clp protease proteolytic subunit;
Provisional.
Length = 221
Score = 29.9 bits (67), Expect = 2.2
Identities = 13/43 (30%), Positives = 22/43 (51%)
Query: 408 QKIDCNLLSTQVSMLINVGANYLNAGIEGKRWGTSHANVVPHQ 450
Q I ++ + M ++ + L AG +GKR H+ V+ HQ
Sbjct: 109 QFISSDVATICTGMAASMASVLLVAGTKGKRSALPHSRVMIHQ 151
>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional.
Length = 880
Score = 30.8 bits (70), Expect = 2.2
Identities = 19/73 (26%), Positives = 35/73 (47%), Gaps = 2/73 (2%)
Query: 132 KLKEK--KILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSIND 189
KLKEK K+ G I+ L K + + +K + +KK + +++ + K + +
Sbjct: 529 KLKEKLIKLKGEIKSLKKELEKLEELKKKLAELEKKLDELEEELAELLKELEELGFESVE 588
Query: 190 ENENKISLYENFY 202
E E ++ E FY
Sbjct: 589 ELEERLKELEPFY 601
>gnl|CDD|224415 COG1498, SIK1, Protein implicated in ribosomal biogenesis, Nop56p
homolog [Translation, ribosomal structure and
biogenesis].
Length = 395
Score = 30.4 bits (69), Expect = 2.3
Identities = 8/25 (32%), Positives = 18/25 (72%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKN 179
+E+ + ++KKK+KK K +++ +N
Sbjct: 371 KERPGRYRRKKKEKKAKSERRGLQN 395
Score = 30.4 bits (69), Expect = 2.3
Identities = 17/62 (27%), Positives = 31/62 (50%), Gaps = 2/62 (3%)
Query: 124 NYDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVD 183
D ++ + EK+I L E+ K P + + KK++ + ++KKK+KK K
Sbjct: 336 EPDGISLREELEKRIEKLKEKPPK--PPTKAKPERDKKERPGRYRRKKKEKKAKSERRGL 393
Query: 184 KN 185
+N
Sbjct: 394 QN 395
>gnl|CDD|218482 pfam05178, Kri1, KRI1-like family. The yeast member of this family
(Kri1p) is found to be required for 40S ribosome
biogenesis in the nucleolus.
Length = 99
Score = 28.8 bits (65), Expect = 2.3
Identities = 5/23 (21%), Positives = 16/23 (69%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKK 178
K ++K +++++ K+ K K+++
Sbjct: 3 RKEEEKAQREEELKRLKNLKREE 25
Score = 28.4 bits (64), Expect = 2.6
Identities = 5/23 (21%), Positives = 17/23 (73%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKK 177
R++ +K +++++ K+ K K+++
Sbjct: 3 RKEEEKAQREEELKRLKNLKREE 25
Score = 28.4 bits (64), Expect = 3.2
Identities = 6/22 (27%), Positives = 16/22 (72%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKK 178
K +K+++K +++++ K+ K K
Sbjct: 1 KERKEEEKAQREEELKRLKNLK 22
Score = 28.0 bits (63), Expect = 3.9
Identities = 7/23 (30%), Positives = 18/23 (78%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKK 178
EKA+++++ K+ K K+++ ++K
Sbjct: 7 EKAQREEELKRLKNLKREEIEEK 29
Score = 27.6 bits (62), Expect = 5.5
Identities = 6/26 (23%), Positives = 19/26 (73%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNI 180
+E+ +++K +++++ K+ K K++ I
Sbjct: 1 KERKEEEKAQREEELKRLKNLKREEI 26
>gnl|CDD|236078 PRK07726, PRK07726, DNA topoisomerase III; Provisional.
Length = 658
Score = 30.5 bits (70), Expect = 2.3
Identities = 11/39 (28%), Positives = 17/39 (43%), Gaps = 1/39 (2%)
Query: 141 LIERLTKNAD-PVCTREKAKKKKKKKKKKKKKKKKKKKK 178
+++ KN VC + K+K KK + KKK
Sbjct: 620 MLKVKGKNGKMLVCQDRECGKRKNVSKKTNARCPNCKKK 658
>gnl|CDD|214659 smart00433, TOP2c, TopoisomeraseII. Eukaryotic DNA topoisomerase
II, GyrB, ParE.
Length = 594
Score = 30.6 bits (70), Expect = 2.3
Identities = 11/50 (22%), Positives = 21/50 (42%), Gaps = 9/50 (18%)
Query: 133 LKEKKIL--GLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNI 180
L+E + ++E++ A KA+ KK ++ +KKK
Sbjct: 326 LEENPVEASKIVEKVLLAA-------KARAAAKKARELTRKKKLSSISLP 368
>gnl|CDD|185507 PTZ00191, PTZ00191, 60S ribosomal protein L23a; Provisional.
Length = 145
Score = 29.3 bits (66), Expect = 2.7
Identities = 13/29 (44%), Positives = 15/29 (51%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISV 182
+ K K KK K KK K KK+K SV
Sbjct: 5 KKAKKKAKKAAKAAKKGVKVKKRKVRTSV 33
>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 = 30.0 bits (68), Expect = 2.7
Identities = 14/36 (38%), Positives = 21/36 (58%)
Query: 159 KKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
KKK+ K+KKK KK KK+N + + I D+ +
Sbjct: 240 DNKKKEWDKQKKKYKKYKKRNNKKNYSDIKDKYAKE 275
>gnl|CDD|240577 cd12950, RRP7_Rrp7p, RRP7 domain ribosomal RNA-processing protein 7
(Rrp7p) and similar proteins. This CD corresponds to
the RRP7 domain of Rrp7p. Rrp7p is encoded by YCL031C
gene from Saccharomyces cerevisiae. It is an essential
yeast protein involved in pre-rRNA processing and
ribosome assembly. Rrp7p contains an N-terminal RNA
recognition motif (RRM), also termed RBD (RNA binding
domain) or RNP (ribonucleoprotein domain), and a
C-terminal RRP7 domain.
Length = 128
Score = 28.8 bits (65), Expect = 2.7
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
E K +++KK+K+KKKKKKK+
Sbjct: 68 EEAGKAAEEEKKEKEKKKKKKKEL 91
Score = 28.8 bits (65), Expect = 2.9
Identities = 12/23 (52%), Positives = 19/23 (82%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKK 177
KA +++KK+K+KKKKKKK+ +
Sbjct: 70 AGKAAEEEKKEKEKKKKKKKELE 92
Score = 27.2 bits (61), Expect = 9.4
Identities = 20/84 (23%), Positives = 36/84 (42%), Gaps = 12/84 (14%)
Query: 105 RTPPPALGEHTDYVLKDLLNYDETTIAKLKEKKILG---------LIERLTKNADPVCTR 155
R P AL E D + ++ + +E+K L + R +
Sbjct: 13 RPPLEALQESVDSFMAL---FEAREEERKRERKRLRNEPDEDGFVTVVRGGRKGPAAGEE 69
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKN 179
+++KK+K+KKKKKKK+ ++
Sbjct: 70 AGKAAEEEKKEKEKKKKKKKELED 93
>gnl|CDD|240246 PTZ00053, PTZ00053, methionine aminopeptidase 2; Provisional.
Length = 470
Score = 30.1 bits (68), Expect = 2.8
Identities = 10/41 (24%), Positives = 19/41 (46%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
E + + K++K++ K+K KKK S +D +
Sbjct: 2 MNENGENEVKQQKQQNKQKGTKKKNKKSKKDVDDDDAFLAE 42
Score = 29.7 bits (67), Expect = 3.7
Identities = 13/48 (27%), Positives = 24/48 (50%)
Query: 147 KNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
+N + ++K + K+K KKK KK KK + + I++ E +
Sbjct: 4 ENGENEVKQQKQQNKQKGTKKKNKKSKKDVDDDDAFLAELISENQEAE 51
Score = 29.3 bits (66), Expect = 4.8
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 1/47 (2%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLYENFY 202
+ K+ KKKKKKKKKKKKK + + + +N +
Sbjct: 50 AENKQNNKKKKKKKKKKKKKNLGEAYDLAYDLPVV-WSSAAFQDNSH 95
Score = 29.3 bits (66), Expect = 5.0
Identities = 14/64 (21%), Positives = 23/64 (35%), Gaps = 4/64 (6%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLYENFYSLDLALSSENPSL 215
+ + ++ + K+ KKKKKKK KN E Y+ A +N +
Sbjct: 41 AELISENQEAENKQNNKKKKKKKKKKKKKN----LGEAYDLAYDLPVVWSSAAFQDNSHI 96
Query: 216 PLSN 219
Sbjct: 97 RKLG 100
>gnl|CDD|219408 pfam07423, DUF1510, Protein of unknown function (DUF1510). This
family consists of several hypothetical bacterial
proteins of around 200 residues in length. The function
of this family is unknown.
Length = 214
Score = 29.7 bits (67), Expect = 2.9
Identities = 12/51 (23%), Positives = 24/51 (47%), Gaps = 2/51 (3%)
Query: 146 TKNADPVCTREK--AKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
T + V EK A + K+ K +K+ ++ ++ + +DENE +
Sbjct: 59 TAEIEEVKEEEKEAANSEDKEDKGDAEKEDEESEEENEEEDEESSDENEKE 109
>gnl|CDD|224212 COG1293, COG1293, Predicted RNA-binding protein homologous to
eukaryotic snRNP [Transcription].
Length = 564
Score = 30.1 bits (68), Expect = 2.9
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 8/61 (13%)
Query: 118 VLKDLLNYDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKK 177
LK+ + Y E+ L++ + IE + + E ++ K KKKK+KKK+ +
Sbjct: 388 ELKEAIAYYESAKTALEKAEGKKAIEEIRE--------ELIEEGLLKSKKKKRKKKEWFE 439
Query: 178 K 178
K
Sbjct: 440 K 440
>gnl|CDD|220121 pfam09135, Alb1, Alb1. Alb1 is a nuclear shuttling factor involved
in ribosome biogenesis.
Length = 112
Score = 28.6 bits (64), Expect = 3.0
Identities = 12/40 (30%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNISVDKNSI-NDENENKI 195
+KKK++KKK K+ +K++K++ +++ I D K
Sbjct: 46 VSKKKQRKKKPKRLTRKQRKRQKKGLERAEIVTDTLSKKR 85
>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3. This
protein, which interacts with both microtubules and
TRAF3 (tumour necrosis factor receptor-associated factor
3), is conserved from worms to humans. The N-terminal
region is the microtubule binding domain and is
well-conserved; the C-terminal 100 residues, also
well-conserved, constitute the coiled-coil region which
binds to TRAF3. The central region of the protein is
rich in lysine and glutamic acid and carries KKE motifs
which may also be necessary for tubulin-binding, but
this region is the least well-conserved.
Length = 506
Score = 30.2 bits (68), Expect = 3.0
Identities = 9/24 (37%), Positives = 18/24 (75%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
+++K+K++ K++KKKKK+K
Sbjct: 101 ESGKEEEKEKEQVKEEKKKKKEKP 124
Score = 29.1 bits (65), Expect = 6.5
Identities = 10/25 (40%), Positives = 18/25 (72%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKK 178
++ K++KKKKK+K K++ K +K
Sbjct: 108 KEKEQVKEEKKKKKEKPKEEPKDRK 132
Score = 29.1 bits (65), Expect = 6.5
Identities = 13/40 (32%), Positives = 23/40 (57%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
+E+ K++KKKKK+K K++ K +K + E E +
Sbjct: 110 KEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKE 149
Score = 29.1 bits (65), Expect = 6.5
Identities = 13/55 (23%), Positives = 29/55 (52%)
Query: 132 KLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNS 186
++KE+K + + D E +K+ K+K+K+K+KK ++ ++ +K
Sbjct: 112 QVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKR 166
Score = 29.1 bits (65), Expect = 6.9
Identities = 12/23 (52%), Positives = 19/23 (82%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKK 178
EK K++ K++KKKKK+K K++ K
Sbjct: 107 EKEKEQVKEEKKKKKEKPKEEPK 129
Score = 28.7 bits (64), Expect = 8.4
Identities = 12/45 (26%), Positives = 25/45 (55%)
Query: 134 KEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
K + G K + ++ K+++K+K++ K++KKKKK+
Sbjct: 78 KRVEKGGSKGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKE 122
Score = 28.7 bits (64), Expect = 9.3
Identities = 9/26 (34%), Positives = 18/26 (69%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNIS 181
K + K+++K+K++ K++KKKK
Sbjct: 98 PKNESGKEEEKEKEQVKEEKKKKKEK 123
>gnl|CDD|221753 pfam12753, Nro1, Nuclear pore complex subunit Nro1. In fission
yeast, this protein is a positive regulator of the
stability of Sre1N, the sterol regulatory
element-binding protein which is an ER membrane-bound
transcription factor that controls adaptation to low
oxygen-growth. In addition, the fission yeast Nro1 is a
direct inhibitor of a protein that inhibits SreN1
degradation, Ofd1 (an oxoglutamate deoxygenase). The
outcome of this reactivity is that Ofd1 acts as an
oxygen sensor that regulates the binding of Nro1 to Ofd1
to control the stability of Sre1N. Solution of the
structure of Nro1 reveals it to be made up of a number
of TPR coils.
Length = 401
Score = 29.8 bits (67), Expect = 3.1
Identities = 17/52 (32%), Positives = 23/52 (44%), Gaps = 1/52 (1%)
Query: 158 AKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLYENFYSLDLALS 209
AK+ K K KK+K + N K S + N+ + L E Y D LS
Sbjct: 2 AKRPLGLGKAAKLKKQKTESGNSEPSKESTPEANQITVELDEV-YDADDELS 52
>gnl|CDD|218612 pfam05501, DUF755, Domain of unknown function (DUF755). This
family is predominated by ORFs from Circoviridae. The
function of this family remains to be determined.
Length = 122
Score = 28.5 bits (64), Expect = 3.2
Identities = 9/28 (32%), Positives = 14/28 (50%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNIS 181
T +K +KK + + KK KK+ S
Sbjct: 77 THKKKRKKSRHVSSRSAKKISAKKRRRS 104
>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor
protein; Reviewed.
Length = 782
Score = 30.2 bits (69), Expect = 3.2
Identities = 11/28 (39%), Positives = 14/28 (50%)
Query: 160 KKKKKKKKKKKKKKKKKKKNISVDKNSI 187
+K +K KKKKKKK K K +
Sbjct: 680 EKIQKPKKKKKKKPKTVKPKPRTVSLEL 707
Score = 29.0 bits (66), Expect = 6.4
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNISV 182
+ +K KKKKKKK K K K + +S+
Sbjct: 680 EKIQKPKKKKKKKPKTVKPKPRTVSL 705
Score = 29.0 bits (66), Expect = 6.8
Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 14/67 (20%)
Query: 116 DYVLKDLLNYDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKK 175
D ++K+L + A +K + LIE K K +KK+KKKKK+K+
Sbjct: 587 DEIIKELRQLQKGGYASVKAHE---LIEAR-----------KRLNKANEKKEKKKKKQKE 632
Query: 176 KKKNISV 182
K++ + V
Sbjct: 633 KQEELKV 639
>gnl|CDD|181784 PRK09334, PRK09334, 30S ribosomal protein S25e; Provisional.
Length = 86
Score = 28.1 bits (63), Expect = 3.2
Identities = 11/29 (37%), Positives = 20/29 (68%)
Query: 159 KKKKKKKKKKKKKKKKKKKKNISVDKNSI 187
++KKKKKK+ K +K+ K I++D+ +
Sbjct: 1 QQKKKKKKEGSKTEKEIKSTIITLDEELL 29
>gnl|CDD|217553 pfam03430, TATR, Trans-activating transcriptional regulator. This
family of trans-activating transcriptional regulator
(TATR), also known as intermediate early protein 1, are
common to the Nucleopolyhedroviruses.
Length = 571
Score = 30.3 bits (68), Expect = 3.2
Identities = 31/150 (20%), Positives = 44/150 (29%), Gaps = 26/150 (17%)
Query: 47 LIFQGVSFPYAQVNSISQVFADEHIQDIKLVKEIS---HEKYGDIKIVGPAVAYSLTQPE 103
L V Y V + S F +I K + + Y V P V Y
Sbjct: 49 LNISTVENAYKTVENASLTFFALYIPLTDSNKPLPRAVPQDYERESAVSPIVEYP-QALS 107
Query: 104 VRTPPPALGEHTDYVLKDLLNYDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKK 163
P T V E ++ + ++D K K
Sbjct: 108 PGESLPESLSETKQVTVSKRKGSE--------------LDSDSDSSDSS--------KGK 145
Query: 164 KKKKKKKKKKKKKKKNISVDKNSINDENEN 193
K K KK++K KK I + +EN N
Sbjct: 146 KLVNKPKKRQKYKKATIQSPTSLTEEENYN 175
>gnl|CDD|223378 COG0301, ThiI, Thiamine biosynthesis ATP pyrophosphatase [Coenzyme
metabolism].
Length = 383
Score = 29.9 bits (68), Expect = 3.3
Identities = 12/59 (20%), Positives = 24/59 (40%), Gaps = 2/59 (3%)
Query: 118 VLKDLLNYDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKK 176
VL+ L+ D+ I ++ + +G E + + C K K K + +K +
Sbjct: 311 VLRPLIGLDKEEIIEIARR--IGTYEISIEPPEDCCVIFAPPTPKTKPKLIEAEKLEFD 367
>gnl|CDD|233160 TIGR00869, sec62, protein translocation protein, Sec62 family.
Members of the NSCC2 family have been sequenced from
various yeast, fungal and animals species including
Saccharomyces cerevisiae, Drosophila melanogaster and
Homo sapiens. These proteins are the Sec62 proteins,
believed to be associated with the Sec61 and Sec63
constituents of the general protein secretary systems of
yeast microsomes. They are also the non-selective cation
(NS) channels of the mammalian cytoplasmic membrane. The
yeast Sec62 protein has been shown to be essential for
cell growth. The mammalian NS channel proteins has been
implicated in platelet derived growth factor(PGDF)
dependent single channel current in fibroblasts. These
channels are essentially closed in serum deprived
tissue-culture cells and are specifically opened by
exposure to PDGF. These channels are reported to exhibit
equal selectivity for Na+, K+ and Cs+ with low
permeability to Ca2+, and no permeability to anions
[Transport and binding proteins, Amino acids, peptides
and amines].
Length = 232
Score = 29.5 bits (66), Expect = 3.3
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKN 179
++K KKK K KK KKK+ K++ N
Sbjct: 208 KDKYSYKKKLKSKKLKKKQAKREAN 232
Score = 29.5 bits (66), Expect = 3.8
Identities = 13/23 (56%), Positives = 15/23 (65%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKK 178
EK K KKK K KK KKK+ K+
Sbjct: 207 EKDKYSYKKKLKSKKLKKKQAKR 229
>gnl|CDD|220371 pfam09736, Bud13, Pre-mRNA-splicing factor of RES complex. This
entry is characterized by proteins with alternating
conserved and low-complexity regions. Bud13 together
with Snu17p and a newly identified factor,
Pml1p/Ylr016c, form a novel trimeric complex. called The
RES complex, pre-mRNA retention and splicing complex.
Subunits of this complex are not essential for viability
of yeasts but they are required for efficient splicing
in vitro and in vivo. Furthermore, inactivation of this
complex causes pre-mRNA leakage from the nucleus. Bud13
contains a unique, phylogenetically conserved C-terminal
region of unknown function.
Length = 141
Score = 28.8 bits (65), Expect = 3.3
Identities = 7/25 (28%), Positives = 22/25 (88%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKK 178
E+ +++K+++K++K++K++K+K+
Sbjct: 13 DIEEKREEKEREKEEKERKEEKEKE 37
>gnl|CDD|234547 TIGR04330, cas_Cpf1, CRISPR-associated protein Cpf1, subtype
PREFRAN. This family is the long protein of a novel
CRISPR subtype, PREFRAN, which is most common in
Prevotella and Francisella, although widely distributed.
The PREFRAN type has Cas1, Cas2, and Cas4, but lacks the
helicase Cas3 and endonuclease Cas3-HD.
Length = 1287
Score = 30.2 bits (68), Expect = 3.4
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 3/43 (6%)
Query: 153 CTREKAKKK---KKKKKKKKKKKKKKKKKNISVDKNSINDENE 192
E KK+ +K K KK+K ++K KK D SI N+
Sbjct: 376 ALEEYIKKQIEPRKGKSKKEKYEEKVKKVVKKQDYLSIQFIND 418
>gnl|CDD|240419 PTZ00440, PTZ00440, reticulocyte binding protein 2-like protein;
Provisional.
Length = 2722
Score = 30.2 bits (68), Expect = 3.4
Identities = 24/81 (29%), Positives = 37/81 (45%), Gaps = 1/81 (1%)
Query: 119 LKDLLNYDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
+K L E + K+ E K LIE K+ + V +K K K+ + KKKK +K K
Sbjct: 1079 IKLLEEKVEALLKKIDENKN-KLIEIKNKSHEHVVNADKEKNKQTEHYNKKKKSLEKIYK 1137
Query: 179 NISVDKNSINDENENKISLYE 199
+ + + N I+L E
Sbjct: 1138 QMEKTLKELENMNLEDITLNE 1158
>gnl|CDD|220357 pfam09716, ETRAMP, Malarial early transcribed membrane protein
(ETRAMP). These sequences represent a family of
proteins from the malaria parasite Plasmodium
falciparum, several of which have been shown to be
expressed specifically in the ring stage as well as the
rodent parasite Plasmodium yoelii. A homologue from
Plasmodium chabaudi was localized to the parasitophorous
vacuole membrane. Members have an initial hydrophobic,
Phe/Tyr-rich, stretch long enough to span the membrane,
a highly charged region rich in Lys, a second putative
transmembrane region and a second highly charged, low
complexity sequence region. Some members have up to 100
residues of additional C-terminal sequence. These genes
have been shown to be found in the sub-telomeric regions
of both Plasmodium falciparum and P. yoelii chromosomes.
Length = 82
Score = 27.6 bits (62), Expect = 3.4
Identities = 13/24 (54%), Positives = 14/24 (58%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNI 180
K K KK KK +KKKK KK I
Sbjct: 31 KKKLKKLKKIDDDLEKKKKNKKKI 54
Score = 26.8 bits (60), Expect = 7.6
Identities = 14/29 (48%), Positives = 17/29 (58%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISV 182
++K KK KK +KKKK KKK IS
Sbjct: 30 KKKKLKKLKKIDDDLEKKKKNKKKIIISS 58
>gnl|CDD|218615 pfam05504, Spore_GerAC, Spore germination B3/ GerAC like,
C-terminal. The GerAC protein of the Bacillus subtilis
spore is required for the germination response to
L-alanine. Members of this family are thought to be
located in the inner spore membrane. Although the
function of this family is unclear, they are likely to
encode the components of the germination apparatus that
respond directly to this germinant, mediating the
spore's response.
Length = 171
Score = 29.1 bits (66), Expect = 3.4
Identities = 19/72 (26%), Positives = 28/72 (38%), Gaps = 2/72 (2%)
Query: 114 HTDYVLKDLLNYDETTIAKLKEKKILGLIERLTK--NADPVCTREKAKKKKKKKKKKKKK 171
D L E + K +K+I LI++L K D E ++K K KK KK
Sbjct: 86 PLDLFNPKELKKLEKALEKEIKKEIEKLIKKLQKEYKVDIFGFGEYLRRKYPKLWKKIKK 145
Query: 172 KKKKKKKNISVD 183
+ N +
Sbjct: 146 NWDEIFPNAEIK 157
>gnl|CDD|173534 PTZ00341, PTZ00341, Ring-infected erythrocyte surface antigen;
Provisional.
Length = 1136
Score = 30.1 bits (67), Expect = 3.4
Identities = 25/66 (37%), Positives = 33/66 (50%), Gaps = 3/66 (4%)
Query: 129 TIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSIN 188
+ L EKK+ E L K A+ + EK KK KK KKK K NI+ + N IN
Sbjct: 869 SDEGLDEKKLKKRAESLKKLANAI---EKYAGGGKKDKKAKKKDAKDLSGNIAHEINLIN 925
Query: 189 DENENK 194
E +N+
Sbjct: 926 KELKNQ 931
Score = 29.0 bits (64), Expect = 8.4
Identities = 19/64 (29%), Positives = 31/64 (48%), Gaps = 7/64 (10%)
Query: 110 ALGEHTDYVLKDLLNYDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKK 169
AL Y + ++N D ++ + E K L R K A+ + KK+ +K KKKK
Sbjct: 285 ALSNQIQYSCRKIMNSDISSFKHINELK--SLEHRAAKAAE-----AEMKKRAEKPKKKK 337
Query: 170 KKKK 173
K++
Sbjct: 338 SKRR 341
>gnl|CDD|218899 pfam06102, DUF947, Domain of unknown function (DUF947). Family of
eukaryotic proteins with unknown function.
Length = 168
Score = 29.2 bits (66), Expect = 3.4
Identities = 14/50 (28%), Positives = 26/50 (52%)
Query: 131 AKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNI 180
LK+ K E L + + +R K K K ++++ K+ KK++K+ I
Sbjct: 70 KALKKTKDSEEKEELKRTLQSMKSRLKTLKNKDREREILKEHKKQEKELI 119
>gnl|CDD|240253 PTZ00068, PTZ00068, 60S ribosomal protein L13a; Provisional.
Length = 202
Score = 29.2 bits (66), Expect = 3.4
Identities = 12/51 (23%), Positives = 24/51 (47%), Gaps = 5/51 (9%)
Query: 140 GLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDE 190
++ +L + +E+A KKK K +K K+ +KK ++ +I
Sbjct: 150 DVVAKLEEK-----RKERAAAYYKKKVKLRKAWKEARKKALAKLPKAIVAV 195
Score = 29.2 bits (66), Expect = 4.0
Identities = 14/55 (25%), Positives = 26/55 (47%), Gaps = 2/55 (3%)
Query: 147 KNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLYENF 201
K AD V E+ +K++ KKK K +K K K ++ + +++ + F
Sbjct: 147 KYADVVAKLEEKRKERAAAYYKKKVKLRKAWKEAR--KKALAKLPKAIVAVLKKF 199
>gnl|CDD|221712 pfam12687, DUF3801, Protein of unknown function (DUF3801). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are typically between 158 and 187 amino
acids in length. This family includes the PcfB protein.
Length = 137
Score = 28.8 bits (65), Expect = 3.5
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKK 178
+K K+++ KKK++K K K KKK
Sbjct: 115 KKFKEEQAAKKKERKDKVKNKKK 137
>gnl|CDD|217756 pfam03839, Sec62, Translocation protein Sec62.
Length = 217
Score = 29.4 bits (66), Expect = 3.8
Identities = 18/68 (26%), Positives = 34/68 (50%), Gaps = 7/68 (10%)
Query: 132 KLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDEN 191
+ K + L+ K E+ KK ++KK++KKK KKKK + V+ + ++
Sbjct: 39 QDKAIEKFKLLI---KAQMA----ERVKKLHSQEKKEEKKKPKKKKVPLQVNPAQLFVDD 91
Query: 192 ENKISLYE 199
E + +Y+
Sbjct: 92 EYYVWIYD 99
Score = 29.0 bits (65), Expect = 4.6
Identities = 13/23 (56%), Positives = 14/23 (60%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKK 178
K K KK KK KKKKKKK+
Sbjct: 195 YKGDKSSAKKDKKSKKKKKKKRS 217
Score = 28.6 bits (64), Expect = 6.2
Identities = 12/22 (54%), Positives = 15/22 (68%)
Query: 154 TREKAKKKKKKKKKKKKKKKKK 175
+K+ KK KK KKKKKKK+
Sbjct: 196 KGDKSSAKKDKKSKKKKKKKRS 217
Score = 28.6 bits (64), Expect = 6.4
Identities = 13/21 (61%), Positives = 13/21 (61%)
Query: 159 KKKKKKKKKKKKKKKKKKKKN 179
K K KK KK KKKKKKK
Sbjct: 196 KGDKSSAKKDKKSKKKKKKKR 216
Score = 28.2 bits (63), Expect = 8.7
Identities = 14/27 (51%), Positives = 15/27 (55%)
Query: 151 PVCTREKAKKKKKKKKKKKKKKKKKKK 177
P+ T K KK KK KKKKKKK
Sbjct: 189 PLYTWHYKGDKSSAKKDKKSKKKKKKK 215
>gnl|CDD|149515 pfam08492, SRP72, SRP72 RNA-binding domain. This region has been
identified as the binding site of the SRP72 protein to
SRP RNA.
Length = 57
Score = 27.0 bits (60), Expect = 3.8
Identities = 12/24 (50%), Positives = 16/24 (66%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKN 179
+K ++KKKK KKK+K K KN
Sbjct: 11 KKPGTEQKKKKSAKKKRKPKLPKN 34
Score = 26.3 bits (58), Expect = 5.9
Identities = 15/28 (53%), Positives = 17/28 (60%), Gaps = 5/28 (17%)
Query: 156 EKAKKKKKKK-----KKKKKKKKKKKKK 178
+K KK KKK KKKK KKK+K K
Sbjct: 3 KKPKKIAKKKPGTEQKKKKSAKKKRKPK 30
Score = 26.3 bits (58), Expect = 7.0
Identities = 17/34 (50%), Positives = 20/34 (58%), Gaps = 5/34 (14%)
Query: 157 KAKKKKKKKKKK-----KKKKKKKKKKNISVDKN 185
+AKK KK KKK KKKK KKK+ + KN
Sbjct: 1 EAKKPKKIAKKKPGTEQKKKKSAKKKRKPKLPKN 34
Score = 26.3 bits (58), Expect = 7.6
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKK 178
+K KKK ++KKKK KKK+K
Sbjct: 4 KPKKIAKKKPGTEQKKKKSAKKKRK 28
>gnl|CDD|213617 TIGR01417, PTS_I_fam, phosphoenolpyruvate-protein
phosphotransferase. This model recognizes a distinct
clade of phophoenolpyruvate (PEP)-dependent enzymes.
Most members are known or deduced to function as the
phosphoenolpyruvate-protein phosphotransferase (or
enzyme I) of PTS sugar transport systems. However, some
species with both a member of this family and a homolog
of the phosphocarrier protein HPr lack a IIC component
able to serve as a permease. An HPr homolog designated
NPr has been implicated in the regulation of nitrogen
assimilation, which demonstrates that not all
phosphotransferase system components are associated
directly with PTS transport.
Length = 565
Score = 29.8 bits (67), Expect = 4.0
Identities = 28/142 (19%), Positives = 51/142 (35%), Gaps = 27/142 (19%)
Query: 142 IERLTKNADPV-CTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSI------------- 187
I+R +A V + K + K K+ + K K K +K +I
Sbjct: 25 IDRKKISASQVDQEISRFLKARAKAKEDLETIKTKAGKTFGQEKAAIFEAHILILEDPEL 84
Query: 188 --------NDENEN-KISLYENFYSLDLALSS-ENPSLPLSNVRILDLTRIIAGPFCTML 237
++ N + + +E F +L ++ L I D+ + G +
Sbjct: 85 TEEVIELIKKDHMNAEFAAHEVFEGQAKSLEEMDDEYLKERAADIRDIGNRLIGHLLGVK 144
Query: 238 LADLGA---EVIKVEQPVTGDE 256
++DL EVI V + +T E
Sbjct: 145 ISDLSEIQDEVILVAEDLTPSE 166
>gnl|CDD|227594 COG5269, ZUO1, Ribosome-associated chaperone zuotin [Translation,
ribosomal structure and biogenesis / Posttranslational
modification, protein turnover, chaperones].
Length = 379
Score = 29.6 bits (66), Expect = 4.0
Identities = 13/33 (39%), Positives = 17/33 (51%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNISVDKNSIND 189
KKK K+ KK K +KK KN + D + D
Sbjct: 284 AVKKKAKEVMKKALKMEKKAIKNAAKDADYFGD 316
Score = 28.8 bits (64), Expect = 7.4
Identities = 11/39 (28%), Positives = 16/39 (41%), Gaps = 3/39 (7%)
Query: 156 EKAKKK---KKKKKKKKKKKKKKKKKNISVDKNSINDEN 191
+A+ KKK K+ KK K KN+ D +
Sbjct: 274 IEAEALASATAVKKKAKEVMKKALKMEKKAIKNAAKDAD 312
>gnl|CDD|240254 PTZ00069, PTZ00069, 60S ribosomal protein L5; Provisional.
Length = 300
Score = 29.3 bits (66), Expect = 4.2
Identities = 15/25 (60%), Positives = 15/25 (60%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKN 179
K KKKKKKKKK KK K KK
Sbjct: 252 PSKVKKKKKKKKKVVHKKYKTKKLT 276
>gnl|CDD|184900 PRK14907, rplD, 50S ribosomal protein L4; Provisional.
Length = 295
Score = 29.5 bits (66), Expect = 4.2
Identities = 13/54 (24%), Positives = 23/54 (42%)
Query: 142 IERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKI 195
++ T + + T++ AK K KK K KK K + K ++ E +
Sbjct: 20 AKKATTSKETAKTKKTAKTTSTKAAKKAAKVKKTKSVKTTTKKVTVKFEKTESV 73
>gnl|CDD|215521 PLN02967, PLN02967, kinase.
Length = 581
Score = 29.6 bits (66), Expect = 4.2
Identities = 11/47 (23%), Positives = 22/47 (46%), Gaps = 1/47 (2%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK-ISLYE 199
TR KA +++K +KK +K++ + + D+ +S E
Sbjct: 117 TRRKAAAASSDVEEEKTEKKVRKRRKVKKMDEDVEDQGSESEVSDVE 163
>gnl|CDD|200340 TIGR03927, T7SS_EssA_Firm, type VII secretion protein EssA.
Members of this family are associated with type VII
secretion of WXG100 family targets in the Firmicutes,
but not in the Actinobacteria. This highly divergent
protein family consists largely of a central region of
highly polar low-complexity sequence containing
occasional LF motifs in weak repeats about 17 residues
in length, flanked by hydrophobic N- and C-terminal
regions [Protein fate, Protein and peptide secretion and
trafficking].
Length = 150
Score = 28.5 bits (64), Expect = 4.2
Identities = 13/49 (26%), Positives = 24/49 (48%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLYENFY 202
T E+ KK +K K+K ++++ K + S + N K L+ + Y
Sbjct: 55 TPEEQKKITFQKHKEKPEQEELKNQLFSENATENNTVKATKKQLFSSEY 103
>gnl|CDD|206228 pfam14058, PcfK, PcfK-like protein. The PcfK-like protein family
includes the Enterococcus faecalis PcfK protein, which
is functionally uncharacterized. This family of proteins
is found in bacteria and viruses. Proteins in this
family are typically between 137 and 257 amino acids in
length. There are two completely conserved residues (D
and L) that may be functionally important.
Length = 136
Score = 28.5 bits (64), Expect = 4.3
Identities = 16/62 (25%), Positives = 26/62 (41%), Gaps = 3/62 (4%)
Query: 125 YDETTIAKLKEKK---ILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNIS 181
YDE I K + LT+ +E K ++++ +K +K+ KK KK
Sbjct: 67 YDEDDIKVGKPINCRVTVNHTVELTEEEKAEARKEALKAYQQEELRKIQKRSKKSKKAEP 126
Query: 182 VD 183
V
Sbjct: 127 VQ 128
>gnl|CDD|226814 COG4379, COG4379, Mu-like prophage tail protein gpP [General
function prediction only].
Length = 386
Score = 29.4 bits (66), Expect = 4.3
Identities = 21/85 (24%), Positives = 29/85 (34%), Gaps = 6/85 (7%)
Query: 99 LTQPEVRTP--PPALGEHTDYVLKDLLNYDETTIAKLKEKKILGLIER--LTKNADPVCT 154
L QP +R P G + L + + K + L L E +A P
Sbjct: 297 LWQPNLRVHVDAPEHGIDAVFFLMGRVVF--MLDRKDGTQTELTLKEDGAFDVDAYPKKA 354
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKN 179
K+K +K K KK KK
Sbjct: 355 EAARKRKGDRKGVSHKAKKGGKKNQ 379
>gnl|CDD|220600 pfam10147, CR6_interact, Growth arrest and DNA-damage-inducible
proteins-interacting protein 1. Members of this family
of proteins act as negative regulators of G1 to S cell
cycle phase progression by inhibiting cyclin-dependent
kinases. Inhibitory effects are additive with GADD45
proteins but occur also in the absence of GADD45
proteins. Furthermore, they act as a repressor of the
orphan nuclear receptor NR4A1 by inhibiting AB
domain-mediated transcriptional activity.
Length = 217
Score = 29.0 bits (65), Expect = 4.4
Identities = 9/28 (32%), Positives = 19/28 (67%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVD 183
EK +KKK K+ K+++K++K+ ++
Sbjct: 188 EKEEKKKVKEAKRREKEEKRMAALVAAA 215
Score = 28.2 bits (63), Expect = 8.3
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 6/59 (10%)
Query: 134 KEKKILGLIERLTKNADPVCTR------EKAKKKKKKKKKKKKKKKKKKKKNISVDKNS 186
KE+ + E DP R +K K++KKK K+ K+++K++K+ V +
Sbjct: 158 KERLVAEAREHFGYWVDPRDPRFQEMLQQKEKEEKKKVKEAKRREKEEKRMAALVAAAA 216
>gnl|CDD|220129 pfam09159, Ydc2-catalyt, Mitochondrial resolvase Ydc2 / RNA
splicing MRS1. Members of this family adopt a secondary
structure consisting of two beta sheets and one alpha
helix, arranged as a beta-alpha-beta motif. Each beta
sheet has five strands, arranged in a 32145 order, with
the second strand being antiparallel to the rest.
Mitochondrial resolvase Ydc2 is capable of resolving
Holliday junctions and cleaves DNA after 5'-CT-3' and
5'-TT-3' sequences. This family also contains the
mitochondrial RNA-splicing protein MRS1 which is
involved in the excision of group I introns.
Length = 254
Score = 29.3 bits (66), Expect = 4.9
Identities = 12/28 (42%), Positives = 15/28 (53%)
Query: 153 CTREKAKKKKKKKKKKKKKKKKKKKKNI 180
C R + +KKK + KKK K KK I
Sbjct: 146 CERTEILAEKKKPRSKKKSSKNSKKLRI 173
Score = 28.9 bits (65), Expect = 5.1
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 158 AKKKKKKKKKKKKKKKKKKKKNI 180
A+KKK + KKK K KK + ++
Sbjct: 153 AEKKKPRSKKKSSKNSKKLRIDL 175
>gnl|CDD|153283 cd07599, BAR_Rvs167p, The Bin/Amphiphysin/Rvs (BAR) domain of
Saccharomyces cerevisiae Reduced viability upon
starvation protein 167 and similar proteins. BAR
domains are dimerization, lipid binding and curvature
sensing modules found in many different proteins with
diverse functions. This subfamily is composed of fungal
proteins with similarity to Saccharomyces cerevisiae
Reduced viability upon starvation protein 167 (Rvs167p)
and Schizosaccharomyces pombe Hob1 (homolog of Bin1). S.
cerevisiae Rvs167p plays a role in regulation of the
actin cytoskeleton, endocytosis, and sporulation. It
forms a heterodimer with another BAR domain protein
Rvs161p. Rvs161p and Rvs167p share common functions but
are not interchangeable. Their BAR domains cannot be
replaced with each other and the overexpression of one
cannot suppress the mutant phenotypes of the other.
Rvs167p also interacts with the GTPase activating
protein (GAP) Gyp5p, which is involved in ER to Golgi
vesicle trafficking. BAR domains form dimers that bind
to membranes, induce membrane bending and curvature, and
may also be involved in protein-protein interactions.
Length = 216
Score = 28.8 bits (65), Expect = 5.0
Identities = 21/76 (27%), Positives = 34/76 (44%), Gaps = 13/76 (17%)
Query: 118 VLKDLLNYDETTIAKLKE-KKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKK 176
+L++L ++E I KE KK + I + K R+ K K + K K +KK
Sbjct: 87 LLEELEFFEERVILPAKELKKYIKKIRKTIKK------RDHKKLDYDKLQNKLNKLLQKK 140
Query: 177 KKNISVDKNSINDENE 192
K + S+ DE +
Sbjct: 141 K------ELSLKDEKQ 150
>gnl|CDD|218332 pfam04929, Herpes_DNAp_acc, Herpes DNA replication accessory
factor. Replicative DNA polymerases are capable of
polymerising tens of thousands of nucleotides without
dissociating from their DNA templates. The high
processivity of these polymerases is dependent upon
accessory proteins that bind to the catalytic subunit of
the polymerase or to the substrate. The Epstein-Barr
virus (EBV) BMRF1 protein is an essential component of
the viral DNA polymerase and is absolutely required for
lytic virus replication. BMRF1 is also a transactivator.
This family is predicted to have a UL42 like structure.
Length = 381
Score = 29.3 bits (66), Expect = 5.2
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 153 CTREKAKKKKKKKKKKKKKKKKKKK 177
K+K++ KK+KKKK KK K
Sbjct: 350 PLALSPKRKREGDKKQKKKKSKKLK 374
Score = 28.9 bits (65), Expect = 7.1
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 160 KKKKKKKKKKKKKKKKKKKNI 180
K+K++ KK+KKKK KK K
Sbjct: 356 KRKREGDKKQKKKKSKKLKLT 376
>gnl|CDD|218312 pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle control protein.
This family represents Cwf15/Cwc15 (from
Schizosaccharomyces pombe and Saccharomyces cerevisiae
respectively) and their homologues. The function of
these proteins is unknown, but they form part of the
spliceosome and are thus thought to be involved in mRNA
splicing.
Length = 241
Score = 28.9 bits (65), Expect = 5.4
Identities = 6/26 (23%), Positives = 22/26 (84%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNI 180
+E+A++K++++++K +++K +++ I
Sbjct: 156 KERAEEKEREEEEKAAEEEKAREEEI 181
>gnl|CDD|218986 pfam06317, Arena_RNA_pol, Arenavirus RNA polymerase. This family
consists of several Arenavirus RNA polymerase proteins
(EC:2.7.7.48).
Length = 2206
Score = 29.6 bits (67), Expect = 5.4
Identities = 15/77 (19%), Positives = 28/77 (36%), Gaps = 7/77 (9%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLYENFYSLDLALSSENPS 214
RE+ K + + + KK K + + D+ + + N YSL S+ S
Sbjct: 235 REEIIKLYQWFRNELFKKGLIKGQFVKTDREEL-------LKELNNLYSLGGHADSDIDS 287
Query: 215 LPLSNVRILDLTRIIAG 231
P +I + +
Sbjct: 288 CPFCANKISPILYFLYA 304
>gnl|CDD|185611 PTZ00428, PTZ00428, 60S ribosomal protein L4; Provisional.
Length = 381
Score = 29.3 bits (66), Expect = 5.4
Identities = 11/36 (30%), Positives = 18/36 (50%)
Query: 144 RLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKN 179
+L K A + AK +K K ++ +KK KK +
Sbjct: 334 KLRKLAVLAQEKATAKGAQKVKNRRARKKAKKARLA 369
Score = 29.3 bits (66), Expect = 5.8
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNI 180
EKA K +K K ++ +KK KK +
Sbjct: 344 EKATAKGAQKVKNRRARKKAKKARL 368
>gnl|CDD|212086 cd11517, SLC6sbd_B0AT3, glycine transporter, B0AT3; solute-binding
domain. B0AT3 (also called Xtrp2, XT2) transports
glycine. Human B0AT3 is encoded by the SLC6A18 gene.
B0AT3 is expressed in the kidney. Mutations in the
SLC6A18 gene may contribute to the autosomal recessive
disorder iminoglycinuria and its related disorder
hyperglycinuria. SLC6A18 or its neighboring genes are
associated with increased susceptibility to myocardial
infarction. This subgroup belongs to the solute carrier
6 (SLC6) transporter family.
Length = 576
Score = 29.4 bits (66), Expect = 5.5
Identities = 18/73 (24%), Positives = 32/73 (43%), Gaps = 5/73 (6%)
Query: 270 LSTYFTCVNRNKKSVCVDFKTPEGQQIIKDLAKQCDVLVENFVPGKLDRLNLGYKHLSEI 329
+ Y C++RN S+ +F PE Q I +D + + P ++ +L L L +
Sbjct: 300 TNDYEHCLDRNILSLINEFDFPE-QSISRDNYPSVLMHLNATWPERVAQLPLKACLLEDF 358
Query: 330 NSQLIYCSVTGFG 342
+ S +G G
Sbjct: 359 LDK----SASGPG 367
>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein
TolA; Provisional.
Length = 387
Score = 29.0 bits (65), Expect = 5.8
Identities = 7/34 (20%), Positives = 13/34 (38%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDKNSIND 189
KA + K +K K +K + ++D
Sbjct: 228 AKAAAEAKAAAEKAAAAKAAEKAAAAKAAAEVDD 261
>gnl|CDD|240520 cd13156, KOW_RPL6, KOW motif of Ribosomal Protein L6. RPL6
contains KOW motif that has an extra ribosomal role as
an oncogenic. KOW domain is known as an RNA-binding
motif that is shared so far among some families of
ribosomal proteins, the essential bacterial
transcriptional elongation factor NusG, the eukaryotic
chromatin elongation factor Spt5, the higher eukaryotic
KIN17 proteins and Mtr4. .
Length = 152
Score = 28.3 bits (64), Expect = 5.9
Identities = 15/38 (39%), Positives = 21/38 (55%), Gaps = 7/38 (18%)
Query: 154 TREKAKKKKKK-------KKKKKKKKKKKKKKNISVDK 184
R+K KKKKKK KKKK +++K+ +VD
Sbjct: 82 KRKKKKKKKKKEGEFFEEKKKKYVVSEERKEDQKAVDA 119
>gnl|CDD|219783 pfam08297, U3_snoRNA_assoc, U3 snoRNA associated. This family of
proteins is associated with U3 snoRNA. U3 snoRNA is
required for nucleolar processing of pre-18S ribosomal
RNA.
Length = 87
Score = 27.4 bits (61), Expect = 5.9
Identities = 10/37 (27%), Positives = 20/37 (54%)
Query: 146 TKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISV 182
++ + ++K K K + KK +K+ K KK ++V
Sbjct: 21 PESYEEELKKQKKKNKLRFLKKLEKRPKDVKKGPVTV 57
Score = 27.0 bits (60), Expect = 6.6
Identities = 9/33 (27%), Positives = 16/33 (48%)
Query: 146 TKNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
+ +++ KK K + KK +K+ K KK
Sbjct: 20 PPESYEEELKKQKKKNKLRFLKKLEKRPKDVKK 52
>gnl|CDD|218281 pfam04826, Arm_2, Armadillo-like. This domain contains
armadillo-like repeats. Proteins containing this domain
interact with numerous other proteins, through these
interactions they are involved in a wide variety of
processes including carcinogenesis, control of cellular
ageing and survival, regulation of circadian rhythm and
lysosomal sorting of G protein-coupled receptors.
Length = 254
Score = 28.9 bits (65), Expect = 5.9
Identities = 16/51 (31%), Positives = 30/51 (58%)
Query: 173 KKKKKKNISVDKNSINDENENKISLYENFYSLDLALSSENPSLPLSNVRIL 223
+ K+K +++ S+N EN+ KI +Y N D+ S N ++ L+ +R+L
Sbjct: 69 EIKEKALNALNNLSVNVENQKKIKVYVNQVCEDIVSSPLNSAVQLAGLRLL 119
>gnl|CDD|222956 PHA02992, PHA02992, hypothetical protein; Provisional.
Length = 728
Score = 29.3 bits (66), Expect = 5.9
Identities = 26/119 (21%), Positives = 42/119 (35%), Gaps = 23/119 (19%)
Query: 113 EHTDYVLKDLLNYDETTIAKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKK 172
E +D++L + DE A + K + + L CT K K KK + +
Sbjct: 437 EASDHLLNIM---DENKGASMFYPKTICSLFYLL------CTNYKLKVKKIPGENRNIPY 487
Query: 173 KKKKKKNISVDKNSINDENENKISLYENFYSLDLALSSENPSLPLSNVRILDLTRIIAG 231
KK KN + + + I L L S P L N++ + + G
Sbjct: 488 KKD------NRKNCFDSLDNSAI--------KSLILISNIPGLDTYNMKDITYEKTRNG 532
>gnl|CDD|177779 PLN00185, PLN00185, 60S ribosomal protein L4-1; Provisional.
Length = 405
Score = 29.0 bits (65), Expect = 5.9
Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 8/51 (15%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNI-----SVDKNSINDENENKISLYENF 201
+ K KK+K KK+K+ K++ I + K I+D + + ++NF
Sbjct: 350 ARVKAKKEKLAKKRKQVSKEEAAAIKAAGKAWYKTMISDSD---YTEFDNF 397
>gnl|CDD|218421 pfam05086, Dicty_REP, Dictyostelium (Slime Mold) REP protein. This
family consists of REP proteins from Dictyostelium
(Slime molds). REP protein is likely involved in
transcription regulation and control of DNA replication,
specifically amplification of plasmid at low copy
numbers. The formation of homomultimers may be required
for their regulatory activity.
Length = 910
Score = 29.4 bits (66), Expect = 6.0
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 3/59 (5%)
Query: 164 KKKKKKKKKKKKKKKNISVDKNSINDENENKISLYENFY---SLDLALSSENPSLPLSN 219
+K K KK KKK+N+ ++ ND + K +L+ N + + + LS + L L +
Sbjct: 534 RKLKDLLCKKFKKKRNVDNSESRANDNEQRKFALFVNEFINNNNYIKLSKLDNCLKLVD 592
>gnl|CDD|143303 cd05895, Ig_Pro_neuregulin-1, Immunoglobulin (Ig)-like domain found
in neuregulin (NRG)-1. Ig_Pro_neuregulin-1:
immunoglobulin (Ig)-like domain found in neuregulin
(NRG)-1. There are many NRG-1 isoforms which arise from
the alternative splicing of mRNA. NRG-1 belongs to the
neuregulin gene family, which is comprised of four
genes. This group represents NRG-1. NRGs are signaling
molecules, which participate in cell-cell interactions
in the nervous system, breast, and heart, and other
organ systems, and are implicated in the pathology of
diseases including schizophrenia, multiple sclerosis,
and breast cancer. The NRG-1 protein binds to and
activates the tyrosine kinases receptors ErbB3 and
ErbB4, initiating signaling cascades. NRG-1 has multiple
functions; for example, in the brain it regulates
various processes such as radial glia formation and
neuronal migration, dendritic development, and
expression of neurotransmitters receptors; in the
peripheral nervous system NRG-1 regulates processes such
as target cell differentiation, and Schwann cell
survival.
Length = 76
Score = 26.9 bits (59), Expect = 6.2
Identities = 14/39 (35%), Positives = 18/39 (46%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENK 194
K K K K K +KKKK + + K S+ D E K
Sbjct: 22 GKEIGAKNKPDNKIKIRKKKKSSELQISKASLADNGEYK 60
>gnl|CDD|217935 pfam04158, Sof1, Sof1-like domain. Sof1 is essential for cell
growth and is a component of the nucleolar rRNA
processing machinery.
Length = 88
Score = 27.2 bits (61), Expect = 6.3
Identities = 24/67 (35%), Positives = 38/67 (56%), Gaps = 15/67 (22%)
Query: 123 LNYDETTIAKLKEK-KILGLIERLTKNADPVCTRE--KAKKKKKKKKKKKKKKKKKKKKN 179
L Y+E LKEK K + I+R+ ++ R KA KK +K K++ K+ KK+K++N
Sbjct: 18 LEYNE----ALKEKYKHMPEIKRIARH------RHVPKAIKKAQKIKREMKEAKKRKEEN 67
Query: 180 ISVDKNS 186
K+S
Sbjct: 68 RR--KHS 72
>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown].
Length = 434
Score = 29.0 bits (65), Expect = 6.7
Identities = 8/25 (32%), Positives = 17/25 (68%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKK 178
E KK+K++ + K+K++K ++K
Sbjct: 409 QEENEKKQKEQADEDKEKRQKDERK 433
>gnl|CDD|218435 pfam05104, Rib_recp_KP_reg, Ribosome receptor lysine/proline rich
region. This highly conserved region is found towards
the C-terminus of the transmembrane domain. The function
is unclear.
Length = 151
Score = 28.0 bits (62), Expect = 6.8
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 159 KKKKKKKKKKKKKKKKKKKK 178
KKKK+K +KK K KKK++K
Sbjct: 27 KKKKEKVSEKKGKSKKKEEK 46
Score = 28.0 bits (62), Expect = 7.6
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 159 KKKKKKKKKKKKKKKKKKKKN 179
KKK+K +KK K KKK++K N
Sbjct: 28 KKKEKVSEKKGKSKKKEEKPN 48
>gnl|CDD|217512 pfam03359, GKAP, Guanylate-kinase-associated protein (GKAP)
protein.
Length = 342
Score = 28.6 bits (64), Expect = 6.9
Identities = 7/29 (24%), Positives = 11/29 (37%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKNISVD 183
++K KK K K + S+D
Sbjct: 269 QKKVPPPVPKKPAKGPIVKPAISREKSLD 297
>gnl|CDD|225048 COG2137, OraA, Uncharacterized protein conserved in bacteria
[General function prediction only].
Length = 174
Score = 28.0 bits (63), Expect = 6.9
Identities = 17/48 (35%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 132 KLKEKKIL-GLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
+LK+K I +IE + D +E+A+K +KK K++ K KK+K
Sbjct: 93 ELKQKGIDDEIIEEALELIDEEDEQERARKVLRKKFKRENKPPDKKEK 140
>gnl|CDD|233605 TIGR01865, cas_Csn1, CRISPR-associated protein Cas9/Csn1, subtype
II/NMEMI. CRISPR loci appear to be mobile elements with
a wide host range. This model represents a protein found
only in CRISPR-containing species, near other
CRISPR-associated proteins (cas), as part of the NMENI
subtype of CRISPR/Cas locus. The species range so far
for this protein is animal pathogens and commensals only
[Mobile and extrachromosomal element functions, Other].
Length = 805
Score = 28.9 bits (65), Expect = 7.0
Identities = 12/55 (21%), Positives = 21/55 (38%), Gaps = 10/55 (18%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK-------NISVDKNSIND---ENENKISLYE 199
RE+ K+ K++ KK + K + K + +N K+ LY
Sbjct: 524 REEQGTNFGKRNSKERYKKNEDKIKEFASALGKEILKEEPTENSSKNILKLRLYY 578
>gnl|CDD|129272 TIGR00168, infC, translation initiation factor IF-3. infC uses
abnormal initiation codons such as AUA, AUC, and CUG
which render its expression particularly sensitive to
excess of its gene product IF-3 thereby regulating its
own expression [Protein synthesis, Translation factors].
Length = 165
Score = 28.1 bits (63), Expect = 7.1
Identities = 19/66 (28%), Positives = 35/66 (53%), Gaps = 10/66 (15%)
Query: 132 KLKEKKILGLIERLTKNAD-PVC--------TREKAKKKKKKKKKKKKKKKKKKKKNISV 182
++ E+ L L+ ++ NA PVC E+ KKKK+ KK +K + K+ K ++
Sbjct: 30 EIAEEAGLDLVL-ISPNAKPPVCKIMDYGKYKYEQEKKKKEAKKNQKIIQVKEVKMRPTI 88
Query: 183 DKNSIN 188
D++ +
Sbjct: 89 DEHDLQ 94
>gnl|CDD|220719 pfam10368, YkyA, Putative cell-wall binding lipoprotein. YkyA is a
family of proteins containing a lipoprotein signal and a
hydrolase domain. It is similar to cell wall binding
proteins and might also be recognisable by a host immune
defence system. It is thus likely to belong to pathways
important for pathogenicity.
Length = 205
Score = 28.5 bits (64), Expect = 7.1
Identities = 16/70 (22%), Positives = 33/70 (47%), Gaps = 4/70 (5%)
Query: 136 KKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNIS-VDKNSINDENENK 194
+ I L ++ N D REK KK+K+ +K +++ K KK I ++ + + +
Sbjct: 65 EAIKKLSDQALANVD---KREKLLKKEKESIEKSEEEFKSAKKYIEKIEDKKLKKKAKQL 121
Query: 195 ISLYENFYSL 204
+ + + Y
Sbjct: 122 VKVMKERYKS 131
>gnl|CDD|237276 PRK13024, PRK13024, bifunctional preprotein translocase subunit
SecD/SecF; Reviewed.
Length = 755
Score = 29.0 bits (66), Expect = 7.4
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 159 KKKKKKKKKKKKKKKKKKKKNIS 181
+K++ KKKKK+KK KK + + I
Sbjct: 733 EKRRLKKKKKRKKVKKWEVEKIE 755
>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p. This subfamily
includes archaeal L12p, the protein that is functionally
equivalent to L7/L12 in bacteria and the P1 and P2
proteins in eukaryotes. L12p is homologous to P1 and P2
but is not homologous to bacterial L7/L12. It is located
in the L12 stalk, with proteins L10, L11, and 23S rRNA.
L12p is the only protein in the ribosome to occur as
multimers, always appearing as sets of dimers. Recent
data indicate that most archaeal species contain six
copies of L12p (three homodimers), while eukaryotes have
four copies (two heterodimers), and bacteria may have
four or six copies (two or three homodimers), depending
on the species. The organization of proteins within the
stalk has been characterized primarily in bacteria,
where L7/L12 forms either two or three homodimers and
each homodimer binds to the extended C-terminal helix of
L10. L7/L12 is attached to the ribosome through L10 and
is the only ribosomal protein that does not directly
interact with rRNA. Archaeal L12p is believed to
function in a similar fashion. However, hybrid ribosomes
containing the large subunit from E. coli with an
archaeal stalk are able to bind archaeal and eukaryotic
elongation factors but not bacterial elongation factors.
In several mesophilic and thermophilic archaeal species,
the binding of 23S rRNA to protein L11 and to the
L10/L12p pentameric complex was found to be
temperature-dependent and cooperative.
Length = 106
Score = 27.5 bits (61), Expect = 7.4
Identities = 14/54 (25%), Positives = 30/54 (55%), Gaps = 3/54 (5%)
Query: 128 TTIAKLKEKKILGLIERLTKN---ADPVCTREKAKKKKKKKKKKKKKKKKKKKK 178
+A L+E I I++ A P A ++K ++K+++KKK+++K++
Sbjct: 40 ALVAALEEVNIDEAIKKAAVAAAAAAPAAAAAAAAEEKAEEKEEEKKKEEEKEE 93
>gnl|CDD|233028 TIGR00571, dam, DNA adenine methylase (dam). All proteins in this
family for which functions are known are DNA-adenine
methyltransferases. This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University). The DNA adenine methylase (dam) of
E. coli and related species is instrumental in
distinguishing the newly synthesized strand during DNA
replication for methylation-directed mismatch repair.
This family includes several phage methylases and a
number of different restriction enzyme chromosomal
site-specific modification systems [DNA metabolism, DNA
replication, recombination, and repair].
Length = 266
Score = 28.5 bits (64), Expect = 7.4
Identities = 20/48 (41%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 289 KTPEGQQIIKDLAKQCDVLVENFVPGKLDRLNLGYKH--LSEINSQLI 334
KT +I K L K + LVE FV G NL K L++IN LI
Sbjct: 11 KTSLLPEIKKHLPKNFNCLVEPFVGGGAVFFNLNPKRYLLNDINEDLI 58
>gnl|CDD|223625 COG0551, TopA, Zn-finger domain associated with topoisomerase type
I [DNA replication, recombination, and repair].
Length = 140
Score = 27.9 bits (62), Expect = 7.5
Identities = 18/90 (20%), Positives = 30/90 (33%), Gaps = 11/90 (12%)
Query: 124 NYDETTIAKLKEKKILGLIERLTK--------NADPVCTREKAKKKKKKKKKKKKKKKKK 175
E T K + L+ + + + P C + K K+KK K +K
Sbjct: 54 AIAEKTGVKCPKCGKGLLVLKKGRFGKNFLGCSNYPKCRFTEKPKPKEKKCPKCGSRKLV 113
Query: 176 KKKNISVDKNSINDENENKISLYENFYSLD 205
+KK K + E NK + +
Sbjct: 114 EKK---EKKKGVFLECSNKPCCLKVENLKN 140
>gnl|CDD|148818 pfam07428, Tri3, 15-O-acetyltransferase Tri3. This family
represents a conserved region approximately 400 residues
long within 15-O-acetyltransferase (Tri3), which seems
to be restricted to ascomycete fungi. In Fusarium
sporotrichioides, this is required for acetylation of
the C-15 hydroxyl group of trichothecenes in the
biosynthesis of T-2 toxin.
Length = 408
Score = 28.9 bits (64), Expect = 7.5
Identities = 21/79 (26%), Positives = 37/79 (46%), Gaps = 7/79 (8%)
Query: 190 ENENKISLYENFYSLDLA-LSSENPSLPLSNVRILDLTRIIAGPF------CTMLLADLG 242
E +N+ SLY+ F + L ++ + L L N++ + ++ G F CT+ D
Sbjct: 29 EEKNRRSLYDLFIATSLRNIAPASTLLTLRNLKDMFELALVEGRFEHPECACTVSWDDQV 88
Query: 243 AEVIKVEQPVTGDECRKWG 261
A +I E P + + R W
Sbjct: 89 AAIISYESPESDESARDWA 107
>gnl|CDD|227935 COG5648, NHP6B, Chromatin-associated proteins containing the HMG
domain [Chromatin structure and dynamics].
Length = 211
Score = 28.3 bits (63), Expect = 7.6
Identities = 13/42 (30%), Positives = 17/42 (40%), Gaps = 2/42 (4%)
Query: 134 KEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKK 175
L+E TK E + KKKK K KK K++
Sbjct: 164 GPSPDKALVE-ETKII-SKAWSELDESKKKKYIDKYKKLKEE 203
>gnl|CDD|227064 COG4720, COG4720, Predicted membrane protein [Function unknown].
Length = 177
Score = 28.1 bits (63), Expect = 7.7
Identities = 19/95 (20%), Positives = 32/95 (33%), Gaps = 10/95 (10%)
Query: 377 VGIASIDLATG--------LYAHGAV--MAALLHKYKTGKGQKIDCNLLSTQVSMLINVG 426
+G A DL +G L HG + +A L K + K L + + I VG
Sbjct: 62 LGHALKDLLSGYPSWMFFTLVIHGLIGLIAGLFGKREMLSSGKKTIIWLGIVLGLAIMVG 121
Query: 427 ANYLNAGIEGKRWGTSHANVVPHQVFKTSNGYVTI 461
L ++ W + + + + I
Sbjct: 122 WYLLAPYLDYLGWAEALGKIGTNGIAGIVQAVSGI 156
>gnl|CDD|217611 pfam03552, Cellulose_synt, Cellulose synthase. Cellulose, an
aggregate of unbranched polymers of beta-1,4-linked
glucose residues, is the major component of wood and
thus paper, and is synthesised by plants, most algae,
some bacteria and fungi, and even some animals. The
genes that synthesise cellulose in higher plants differ
greatly from the well-characterized genes found in
Acetobacter and Agrobacterium sp. More correctly
designated as 'cellulose synthase catalytic subunits',
plant cellulose synthase (CesA) proteins are integral
membrane proteins, approximately 1,000 amino acids in
length. There are a number of highly conserved residues,
including several motifs shown to be necessary for
processive glycosyltransferase activity.
Length = 716
Score = 28.9 bits (65), Expect = 7.8
Identities = 11/34 (32%), Positives = 17/34 (50%)
Query: 160 KKKKKKKKKKKKKKKKKKKNISVDKNSINDENEN 193
++KK K K KKK K+K ++ D +E
Sbjct: 312 RRKKPKSASKAKKKDSKRKESEAPIFNLEDIDEG 345
>gnl|CDD|218337 pfam04939, RRS1, Ribosome biogenesis regulatory protein (RRS1).
This family consists of several eukaryotic ribosome
biogenesis regulatory (RRS1) proteins. RRS1 is a nuclear
protein that is essential for the maturation of 25 S
rRNA and the 60 S ribosomal subunit assembly in
Saccharomyces cerevisiae.
Length = 164
Score = 28.0 bits (63), Expect = 7.9
Identities = 9/29 (31%), Positives = 16/29 (55%)
Query: 147 KNADPVCTREKAKKKKKKKKKKKKKKKKK 175
DP + + KK++ K +K++ K KK
Sbjct: 136 PKEDPFAKKRREKKERVAKNEKRELKNKK 164
Score = 27.6 bits (62), Expect = 9.7
Identities = 8/22 (36%), Positives = 16/22 (72%)
Query: 159 KKKKKKKKKKKKKKKKKKKKNI 180
KK+++KK++ K +K++ KN
Sbjct: 142 AKKRREKKERVAKNEKRELKNK 163
>gnl|CDD|223898 COG0828, RpsU, Ribosomal protein S21 [Translation, ribosomal
structure and biogenesis].
Length = 67
Score = 26.5 bits (59), Expect = 7.9
Identities = 8/21 (38%), Positives = 15/21 (71%)
Query: 159 KKKKKKKKKKKKKKKKKKKKN 179
K+K+KK +K+K K+ +K+
Sbjct: 44 KRKRKKAAARKRKFKRLRKEQ 64
>gnl|CDD|222665 pfam14303, NAM-associated, No apical meristem-associated C-terminal
domain. This domain is found in a number of different
types of plant proteins including NAM-like proteins.
Length = 147
Score = 27.7 bits (62), Expect = 8.2
Identities = 9/25 (36%), Positives = 17/25 (68%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKKN 179
+ K K ++ K K KK++ +K+K+K
Sbjct: 67 KAKEKLRRDKLKAKKEEAEKEKEKE 91
Score = 27.7 bits (62), Expect = 9.2
Identities = 11/24 (45%), Positives = 19/24 (79%)
Query: 155 REKAKKKKKKKKKKKKKKKKKKKK 178
R+KAK+K ++ K K KK++ +K+K
Sbjct: 65 RKKAKEKLRRDKLKAKKEEAEKEK 88
>gnl|CDD|215278 PLN02502, PLN02502, lysyl-tRNA synthetase.
Length = 553
Score = 28.8 bits (65), Expect = 8.3
Identities = 12/54 (22%), Positives = 22/54 (40%), Gaps = 2/54 (3%)
Query: 143 ERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKIS 196
E L+KNA R KAK+ +++K K++ K ++ +
Sbjct: 6 EPLSKNALKK--RLKAKQAEEEKAAKEEAKAAAAAAAAKGRSRKSAAADDETMD 57
>gnl|CDD|237028 PRK12267, PRK12267, methionyl-tRNA synthetase; Reviewed.
Length = 648
Score = 28.6 bits (65), Expect = 8.4
Identities = 8/27 (29%), Positives = 17/27 (62%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNISVD 183
K + + K+ ++K+KK +K I++D
Sbjct: 520 KEQMEGSAPKEPEEKEKKPEKPEITID 546
>gnl|CDD|216919 pfam02181, FH2, Formin Homology 2 Domain.
Length = 372
Score = 28.4 bits (64), Expect = 8.4
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKNISVDKN 185
+ K KK KK +KK KKKKK+ + ++
Sbjct: 52 AKAKKKKSKKSEKKSSSKKKKKEISVLDPKRS 83
>gnl|CDD|222988 PHA03105, PHA03105, EEV glycoprotein; Provisional.
Length = 188
Score = 28.1 bits (62), Expect = 8.4
Identities = 18/51 (35%), Positives = 23/51 (45%), Gaps = 5/51 (9%)
Query: 165 KKKKKKKKKKKKKKNISVDKNSI-----NDENENKISLYENFYSLDLALSS 210
K KK KKKK KNI + NSI + E E+ + D + SS
Sbjct: 27 KNTIKKFLKKKKGKNICIRLNSITYSTNSIEKEDIKTGSSTISESDWSNSS 77
>gnl|CDD|206034 pfam13863, DUF4200, Domain of unknown function (DUF4200). This
family is found in eukaryotes. It is a coiled-coil
domain of unknwon function.
Length = 126
Score = 27.6 bits (62), Expect = 8.8
Identities = 12/50 (24%), Positives = 31/50 (62%), Gaps = 2/50 (4%)
Query: 155 REKAKKKKKKKKKKKKKK-KKKKKKNISVDK-NSINDENENKISLYENFY 202
R +A+KK +++KK +K+K ++ K+ +++ + ++ E K+ Y+ +
Sbjct: 62 RRRAEKKAEEEKKLRKEKEEEIKELKAELEELKAEIEKLEEKLEEYQPYE 111
>gnl|CDD|202819 pfam03939, Ribosomal_L23eN, Ribosomal protein L23, N-terminal
domain. The N-terminal domain appears to be specific to
the eukaryotic ribosomal proteins L25, L23, and L23a.
Length = 52
Score = 25.7 bits (57), Expect = 8.9
Identities = 10/20 (50%), Positives = 11/20 (55%)
Query: 157 KAKKKKKKKKKKKKKKKKKK 176
KA K KK K KKK+K
Sbjct: 4 KALKAKKAVLKGVHGKKKRK 23
Score = 25.7 bits (57), Expect = 9.7
Identities = 11/22 (50%), Positives = 12/22 (54%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKK 178
KAK K KK K KKK+K
Sbjct: 2 KAKALKAKKAVLKGVHGKKKRK 23
>gnl|CDD|240377 PTZ00352, PTZ00352, 60S ribosomal protein L13; Provisional.
Length = 212
Score = 28.1 bits (63), Expect = 9.0
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 154 TREKAKKKKKKKKKKKKKKKKKKKKN 179
T +AK K KK+KKK+ K+KK
Sbjct: 187 TLRQAKLNAKFVGKKEKKKQAKEKKK 212
>gnl|CDD|219748 pfam08214, KAT11, Histone acetylation protein. Histone acetylation
is required in many cellular processes including
transcription, DNA repair, and chromatin assembly. This
family contains the fungal KAT11 protein (previously
known as RTT109) which is required for H3K56
acetylation. Loss of KAT11 results in the loss of H3K56
acetylation, both on bulk histone and on chromatin.
KAT11 and H3K56 acetylation appear to correlate with
actively transcribed genes and associate with the
elongating form of Pol II in yeast. This family also
incorporates the p300/CBP histone acetyltransferase
domain which has different catalytic properties and
cofactor regulation to KAT11.
Length = 341
Score = 28.5 bits (64), Expect = 9.2
Identities = 14/69 (20%), Positives = 25/69 (36%), Gaps = 4/69 (5%)
Query: 152 VCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKISLY----ENFYSLDLA 207
V K KK+ K+ KK ++ +S + + + + E+F + L
Sbjct: 271 VINPPKLVVSKKQYKRAKKAITGEEYDTLSGAASLVQNLMDKLYETMLKKKEDFIVIRLN 330
Query: 208 LSSENPSLP 216
S S P
Sbjct: 331 HSCTACSTP 339
>gnl|CDD|221177 pfam11708, Slu7, Pre-mRNA splicing Prp18-interacting factor. The
spliceosome, an assembly of snRNAs (U1, U2, U4/U6, and
U5) and proteins, catalyzes the excision of introns from
pre-mRNAs in two successive trans-esterification
reactions. Step 2 depends upon integral spliceosome
constituents such as U5 snRNA and Prp8 and
non-spliceosomal proteins Prp16, Slu7, Prp18, and Prp22.
ATP hydrolysis by the DEAH-box enzyme Prp16 promotes a
conformational change in the spliceosome that leads to
protection of the 3'ss from targeted RNase H cleavage.
This change, which probably reflects binding of the 3'ss
PyAG in the catalytic centre of the spliceosome,
requires the ordered recruitment of Slu7, Prp18, and
Prp22 to the spliceosome. There is a close functional
relationship between Prp8, Prp18, and Slu7, and Prp18
interacts with Slu7, so that together they recruit Prp22
to the spliceosome. Most members of the family carry a
zinc-finger of the CCHC-type upstream of this domain.
Length = 236
Score = 28.2 bits (63), Expect = 9.3
Identities = 9/24 (37%), Positives = 19/24 (79%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKKNI 180
K + +KK+K+KK++ K +KK+++
Sbjct: 157 KLELLRKKEKEKKEQLKIQKKQSL 180
>gnl|CDD|214922 smart00935, OmpH, Outer membrane protein (OmpH-like). This family
includes outer membrane proteins such as OmpH among
others. Skp (OmpH) has been characterized as a molecular
chaperone that interacts with unfolded proteins as they
emerge in the periplasm from the Sec translocation
machinery.
Length = 140
Score = 27.5 bits (62), Expect = 9.3
Identities = 19/62 (30%), Positives = 36/62 (58%), Gaps = 2/62 (3%)
Query: 134 KEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENEN 193
EK++ L E+L K+A + E A++KK+K+ +KK ++ ++K++ + D E
Sbjct: 37 LEKELQKLKEKLQKDAATL--SEAAREKKEKELQKKVQEFQRKQQKLQQDLQKRQQEELQ 94
Query: 194 KI 195
KI
Sbjct: 95 KI 96
>gnl|CDD|197876 smart00792, Agouti, Agouti protein. The agouti protein regulates
pigmentation in the mouse hair follicle producing a
black hair with a subapical yellow band. A highly
homologous protein agouti signal protein (ASIP) is
present in humans and is expressed at highest levels in
adipose tissue where it may play a role in energy
homeostasis and possibly human pigmentation.
Length = 124
Score = 27.2 bits (60), Expect = 9.5
Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 5/43 (11%)
Query: 131 AKLKEKKILGLIERLTKNADPVCTREKAKKKKKKKKKKKKKKK 173
A I+GL ++ K + E+A+KK +KK+KK
Sbjct: 40 ADFPSVSIVGLNKKPKKI-----SAEEAEKKLLQKKEKKALTN 77
>gnl|CDD|237744 PRK14521, rpsP, 30S ribosomal protein S16; Provisional.
Length = 186
Score = 27.8 bits (62), Expect = 9.8
Identities = 13/40 (32%), Positives = 18/40 (45%), Gaps = 1/40 (2%)
Query: 156 EKAKKKKKKKKKKKKKKKKKKKKNISVDKNSINDENENKI 195
EK K KK K K KK KK + +K +N+ +
Sbjct: 109 EKEGKVNAKKDKLSKAKKAAKKAALEAEK-KVNEARAEAV 147
>gnl|CDD|225816 COG3277, GAR1, RNA-binding protein involved in rRNA processing
[Translation, ribosomal structure and biogenesis].
Length = 98
Score = 26.9 bits (60), Expect = 9.9
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 157 KAKKKKKKKKKKKKKKKKKKKK 178
K +KK+K +KK++ KK
Sbjct: 76 PPDKLIRKKRKLPRKKRRPKKP 97
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
0.317 0.135 0.395
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 25,475,777
Number of extensions: 2518360
Number of successful extensions: 13065
Number of sequences better than 10.0: 1
Number of HSP's gapped: 9678
Number of HSP's successfully gapped: 716
Length of query: 501
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 400
Effective length of database: 6,457,848
Effective search space: 2583139200
Effective search space used: 2583139200
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: 61 (27.2 bits)