RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 048621
(456 letters)
>gnl|CDD|215285 PLN02521, PLN02521, galactokinase.
Length = 497
Score = 857 bits (2217), Expect = 0.0
Identities = 343/456 (75%), Positives = 405/456 (88%), Gaps = 3/456 (0%)
Query: 1 MARHEETPVPTLASLKEVYGEGSQLEEAQLRFGNLKSKFIQIFGHAPDVYARSPGRVNLI 60
MA+HEE PVP +SL+ VYG+GS LEEA+LR+ LK+ F++++G PD++ARSPGRVNLI
Sbjct: 1 MAKHEEEPVPVFSSLEPVYGDGSLLEEARLRYARLKAAFVEVYGAKPDLFARSPGRVNLI 60
Query: 61 GEHIDYEGYSVLPMAIRQDTIVAIRKHVSGETEKVLKIANVSDKYSLCTYPAEPDQELDL 120
GEHIDYEGYSVLPMAIRQDTIVAIR+ E K L+IANV+DKY+ CT+PA+PDQE+DL
Sbjct: 61 GEHIDYEGYSVLPMAIRQDTIVAIRRA---EGSKKLRIANVNDKYTTCTFPADPDQEVDL 117
Query: 121 KHHQWGHYFICGYKGFYEYVKAKGLDVGPPVGLDILVDGIVPTGSGLSSSAAFVCSSTIA 180
+H+WG+YFICGYKG +E++K+KG+DVGPPVGLD++VDG VPTGSGLSSSAA VCS+ IA
Sbjct: 118 ANHKWGNYFICGYKGVFEFLKSKGVDVGPPVGLDVVVDGTVPTGSGLSSSAALVCSAAIA 177
Query: 181 LMAAFGVEVPKKEIAQLTCECERYIGAQSGGMDQAISIMAKSGFAELIDFNPIRATDVQL 240
+MAA G+ KKE+AQ TC+CER+IG QSGGMDQAISIMA+ G A+LIDFNP+RATDVQL
Sbjct: 178 IMAALGLNFTKKEVAQFTCKCERHIGTQSGGMDQAISIMAQQGVAKLIDFNPVRATDVQL 237
Query: 241 PAGGTFVIAHSLAESLKAVTAATNYNNRVVECRLAAIVLGIKLGMKPQEAISKVKTLSDV 300
PAGGTFVIA+SLAES KAVTAATNYNNRVVECRLAAIVL +KLGM +EAISKVKTLSDV
Sbjct: 238 PAGGTFVIANSLAESNKAVTAATNYNNRVVECRLAAIVLAVKLGMSAEEAISKVKTLSDV 297
Query: 301 EGLCVAFAGKNGSDDPFLAVKEFLHEEPYMAKDIEKIIEEKLSSIFANSSSSLDVLNAAK 360
EGLCV+FAG +GS DP +AVKE LHE PY A++IE+I+ E L+SIF NS +SL VL AAK
Sbjct: 298 EGLCVSFAGSHGSSDPAVAVKELLHEGPYTAEEIEEILGESLTSIFKNSPTSLAVLKAAK 357
Query: 361 HYKLHQRAAHVYSEAKRVYAFKDTVYSNLSDEDKLRRLGDLMNDSHHSCSVLYECSCPEL 420
H+KLHQRA HVYSEAKRV+AF+DTV S+LS+E+KL++LGDLMN+SH+SCSVLYECSCPEL
Sbjct: 358 HFKLHQRAVHVYSEAKRVHAFRDTVSSSLSEEEKLKKLGDLMNESHYSCSVLYECSCPEL 417
Query: 421 EELVTVCRDNGALGARLTGAGWGGCAVVLVKESIVP 456
EELV VCRDNGALGARLTGAGWGGCAV LVKE+IVP
Sbjct: 418 EELVKVCRDNGALGARLTGAGWGGCAVALVKEAIVP 453
>gnl|CDD|223231 COG0153, GalK, Galactokinase [Carbohydrate transport and
metabolism].
Length = 390
Score = 245 bits (628), Expect = 3e-77
Identities = 133/433 (30%), Positives = 181/433 (41%), Gaps = 101/433 (23%)
Query: 34 NLKSKFIQIFG-HAPDVYARSPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHVSGET 92
L++ F + FG P V A +PGRVNLIGEH DY G VLP AI T VA+ K
Sbjct: 8 KLQALFAEHFGYVEPTVTAFAPGRVNLIGEHTDYNGGFVLPCAINYGTYVAVAK------ 61
Query: 93 EKVLKIANVSDKYSLCTYPAEPDQELD----------LKHHQWGHYFICGYKGFYEYVKA 142
D + Y A D K W +Y K +
Sbjct: 62 ---------RDDGKVRLYSANFGNAGDIFFLLLDIAKEKIDDWANYVKGVIKALQKR--- 109
Query: 143 KGLDVGPPVGLDILVDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECE 202
G GLDI++ G +P G+GLSSSAA + +AL F + + K E+A++ E
Sbjct: 110 -GYAFT---GLDIVISGNIPIGAGLSSSAALEVAVALALQRLFNLPLDKAELAKIAQVAE 165
Query: 203 -RYIGAQSGGMDQAISIMAKSGFAELIDFNPIRATDVQLPAGG-TFVIAHSLAESLKAVT 260
+++G G MDQ S K A L+D + V P GG + VI +S K
Sbjct: 166 NQFVGVNCGIMDQLASAFGKKDHALLLDCRTLEYEPVPFPVGGVSIVIVNSNV---KREL 222
Query: 261 AATNYNNRVVECRLAAIVLGIKLGMKPQEAISKVKTLSDVEGLCVAFAGKNGSDDPFLAV 320
A + YN R EC AA LG+ + K+L DV +D+ F A+
Sbjct: 223 ADSEYNERRAECEEAAEFLGVSI-----------KSLRDV------------TDEEFAAL 259
Query: 321 KEFLHEEPYMAKDIEKIIEEKLSSIFANSSSSLDVLNAAKHYKLHQRAAHVYSEAKRVYA 380
+ + +P K+ +RA HV +E +RV
Sbjct: 260 QAEIEVDP----------------------------------KIARRARHVVTENQRV-- 283
Query: 381 FKDTVYSNLSDEDKLRRLGDLMNDSHHSCSVLYECSCPELEELV-TVCRDNGALGARLTG 439
+ L G+LMN+SH S YE +CPEL+ LV GA GAR+TG
Sbjct: 284 -LEAA--KALRSGDLTEFGELMNESHESLRDDYEVTCPELDTLVEIALAAGGAYGARMTG 340
Query: 440 AGWGGCAVVLVKE 452
AG+GGC + LV
Sbjct: 341 AGFGGCVIALVPN 353
>gnl|CDD|232841 TIGR00131, gal_kin, galactokinase. Galactokinase is a member of
the GHMP kinases (Galactokinase, Homoserine kinase,
Mevalonate kinase, Phosphomevalonate kinase) and shares
with them an amino-terminal domain probably related to
ATP binding.The galactokinases found by This model are
divided into two sets. Prokaryotic forms are generally
shorter. The eukaryotic forms are longer because of
additional central regions and in some cases are known
to be bifunctional, with regulatory activities that are
independent of galactokinase activity [Energy
metabolism, Sugars].
Length = 386
Score = 242 bits (620), Expect = 4e-76
Identities = 137/428 (32%), Positives = 188/428 (43%), Gaps = 81/428 (18%)
Query: 34 NLKSKFIQIFGHAPDVYARSPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHVSGETE 93
+++ F FG PD AR+PGRVNLIGEH DY SVLP AI T+ A+ +
Sbjct: 3 SIQKIFASAFGAKPDFTARAPGRVNLIGEHTDYNDGSVLPCAIDFGTLCAVAV----RDD 58
Query: 94 KVLKI--ANVSDKYSLCTYPAEPDQELDLKHHQWGHYFICGYKGFYEYVKAKGLDVGPPV 151
K ++I AN +K++ + D + W +YF E + P+
Sbjct: 59 KNVRIYLANADNKFAERSLDLPLDGS---EVSDWANYFKGVLHVAQE----RFNSF--PL 109
Query: 152 GLDILVDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECE-RYIGAQSG 210
G DI+ G VPTGSGLSSSAAF C+ L + + K+I E ++G G
Sbjct: 110 GADIVCSGNVPTGSGLSSSAAFECAVGAVLQNMGHLPLDSKQILLRIQVAENHFVGVNCG 169
Query: 211 GMDQAISIMAKSGFAELIDFNPIRATDVQLPAGG-TFVIAHSLAESLKAVTAATNYNNRV 269
MDQA S++ K A L++ ++AT + P G FVIA++ +K A +NYN R
Sbjct: 170 IMDQAASVLGKEDHALLVECRSLKATPFKFPQLGIAFVIANTN---VKRTLAPSNYNTRR 226
Query: 270 VECRLAAIVLGIKLGMKPQEAISKVKTLSDVEGLCVAFAGKNGSDDPFLAVKEFLHEEPY 329
EC AA L L D
Sbjct: 227 QECTTAANFLAATD----------KGALRDF----------------------------- 247
Query: 330 MAKDIEKIIEEKLSSIFANSSSSLDVLNAAKHYKLHQRAAHVYSEAKRVYAFKDTVYSNL 389
M + + I + + L +RA HV SE RV V +
Sbjct: 248 MNEYFARYIAR---------LTKMLPLVE-------ERAKHVVSENLRVL---KAV-KAM 287
Query: 390 SDEDKLRRLGDLMNDSHHSCSVLYECSCPELEELVTVCRD-NGALGARLTGAGWGGCAVV 448
D D ++ G LMN+SH SC YEC+CPE++ELV NG+ G+R+TGAG+GGC V
Sbjct: 288 KDND-FKQFGALMNESHASCDDDYECTCPEIDELVCSAALVNGSGGSRMTGAGFGGCTVH 346
Query: 449 LVKESIVP 456
LV V
Sbjct: 347 LVPNENVD 354
>gnl|CDD|235407 PRK05322, PRK05322, galactokinase; Provisional.
Length = 387
Score = 178 bits (453), Expect = 2e-51
Identities = 130/437 (29%), Positives = 186/437 (42%), Gaps = 102/437 (23%)
Query: 34 NLKSKFIQIFGHAPDVYARSPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHVSGETE 93
LK KF ++FG + SPGR+NLIGEH DY G V P AI T A RK + +
Sbjct: 5 ELKKKFAEVFGEEAEDVFFSPGRINLIGEHTDYNGGHVFPAAITLGTYGAARKR---DDK 61
Query: 94 KV-LKIANVSDKYSLCTYPAEPDQELDL------KHHQWGHYFICGYKGFYEYVKAKGLD 146
KV L AN D + E DL K W +Y KG ++++ G
Sbjct: 62 KVRLYSANFEDLGII---------EFDLDDLSFDKEDDWANYP----KGVLKFLQEAGYK 108
Query: 147 VGPPVGLDILVDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECE-RYI 205
+ G DIL+ G +P G+GLSSSA+ + + L F +++ + E+ +L + E +I
Sbjct: 109 IDH--GFDILIYGNIPNGAGLSSSASIELLTGVILKDLFNLDLDRLELVKLGQKTENEFI 166
Query: 206 GAQSGGMDQAISIMAKSGFAELIDFNPIRATDVQLPAGG-TFVIA-----HSLAESLKAV 259
G SG MDQ M K A L+D N + V L G VI LA+S
Sbjct: 167 GVNSGIMDQFAIGMGKKDHAILLDCNTLEYEYVPLDLGDYVIVIMNTNKRRELADS---- 222
Query: 260 TAATNYNNRVVECRLAAIVLGIKLGMKPQEAISKVKTLSDVEGLCVAFAGKNGSDDPFLA 319
YN R EC ++A+ +++ D++ L +++ F
Sbjct: 223 ----KYNERRAEC---------------EKALEELQKKLDIKSLG------ELTEEEFDE 257
Query: 320 VKEFLHEEPYMAKDIEKIIEEKLSSIFANSSSSLDVLNAAKHYKLHQRAAHVYSEAKRVY 379
+ +E L +RA H +E +R
Sbjct: 258 YSYLIKDE-----------------------------------TLLKRARHAVTENQRT- 281
Query: 380 AFKDTVYSNLSDEDKLRRLGDLMNDSHHSCSVLYECSCPELEELV-TVCRDNGALGARLT 438
V + L D L + G LMN SH S YE + EL+ LV + G LGAR+T
Sbjct: 282 --LKAVKA-LKAGD-LEKFGRLMNASHVSLRDDYEVTGLELDTLVEAAWKQEGVLGARMT 337
Query: 439 GAGWGGCAVVLVKESIV 455
GAG+GGCA+ +VK+ V
Sbjct: 338 GAGFGGCAIAIVKKDKV 354
>gnl|CDD|179937 PRK05101, PRK05101, galactokinase; Provisional.
Length = 382
Score = 160 bits (408), Expect = 6e-45
Identities = 130/443 (29%), Positives = 181/443 (40%), Gaps = 118/443 (26%)
Query: 34 NLKSKFIQIFGHAPDVYARSPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHVSGETE 93
+S F Q FG+ P ++PGRVNLIGEH DY VLP AI T+++ K +
Sbjct: 6 KTQSLFAQQFGYPPTHTIQAPGRVNLIGEHTDYNDGFVLPCAIDYQTVISCAKR---DDR 62
Query: 94 KVLKIA----NVSDKYSLCTYPAEPDQELDLKHHQWGHYFICGYKGFYEYVKAKGLDVGP 149
V IA N D++SL P P E QW +Y +G ++++ + D G
Sbjct: 63 IVRVIAADYDNQQDEFSL-DAPIVPHPE-----QQWANYV----RGVVKHLQERNPDFG- 111
Query: 150 PVGLDILVDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECE-RYIGAQ 208
G D+++ G VP G+GLSSSA+ + + + + EIA E E +++G
Sbjct: 112 --GADLVISGNVPQGAGLSSSASLEVAVGQTFQQLYHLPLSGAEIALNGQEAENQFVGCN 169
Query: 209 SGGMDQAISIMAKSGFAELIDFNPIRATDVQLPAGGTFVIAHS-----LAESLKAVTAAT 263
G MDQ IS + K A LID + V +P G VI +S L +S
Sbjct: 170 CGIMDQLISALGKKDHALLIDCRSLETKAVPMPEGVAVVIINSNVKRGLVDS-------- 221
Query: 264 NYNNRVVECRLAAIVLGIKLGMKPQEAISKVKTLSDVEGLCVAFAGKNGSDDPFLAVKEF 323
YN R +C AA G VK L DV
Sbjct: 222 EYNTRRQQCETAARFFG-------------VKALRDV----------------------- 245
Query: 324 LHEEPYMAKDIEKIIEEKLSSIFANSSSSLDVLNAAKH------YKLHQRAAHVYSEAKR 377
+L+ NA K RA HV +E R
Sbjct: 246 ----------------------------TLEQFNAVAAELDPVVAK---RARHVITENAR 274
Query: 378 VYAFKDTVYSNLSDEDKLRRLGDLMNDSHHSCSVLYECSCPELEELV----TVCRDNGAL 433
L+ D L+R+G+LM +SH S +E + P+++ LV V D G
Sbjct: 275 TLEAASA----LAAGD-LKRMGELMAESHASMRDDFEITVPQIDTLVEIVKAVIGDQG-- 327
Query: 434 GARLTGAGWGGCAVVLVKESIVP 456
G R+TG G+GGC V LV E +V
Sbjct: 328 GVRMTGGGFGGCIVALVPEELVE 350
>gnl|CDD|235163 PRK03817, PRK03817, galactokinase; Provisional.
Length = 351
Score = 154 bits (392), Expect = 5e-43
Identities = 116/403 (28%), Positives = 168/403 (41%), Gaps = 94/403 (23%)
Query: 52 RSPGRVNLIGEHIDY-EGYSVLPMAIRQDTIVAIRKHVSGETEKVLKIANVSDKYSLCTY 110
+SPGRVNLIGEH DY +GY VLP AI T + I K S + + N + L
Sbjct: 4 KSPGRVNLIGEHTDYNDGY-VLPFAINLYTFLEIEK--SEKFIFYSENFNEEKTFEL--- 57
Query: 111 PAEPDQELDLKHHQWGHYFICGYKGFYEYVKAKGLDVGPPVGLDILVDGIVPTGSGLSSS 170
+L+ K + W Y KG ++ +G +VG + V +P G+GLSSS
Sbjct: 58 -----DKLE-KLNSWADYI----KGVIWVLEKRGYEVGG---VKGKVSSNLPIGAGLSSS 104
Query: 171 AAFVCSSTIALMAAFGVEVPKKEIAQLTCECER-YIGAQSGGMDQAISIMAKSGFAELID 229
A+ + AL A+ + + K E+A L E E ++G G MDQ K A +D
Sbjct: 105 ASLEVAVAYALNEAYNLNLSKLELALLAREAENEFVGVPCGIMDQFAVAFGKKDHAIFLD 164
Query: 230 FNPIRATDVQLPAGGTFVIAHSLAESLKAVTAATNYNNRVVECRLAAIVLGIKLGMKPQE 289
+ V P ++ + +K A++ YN R QE
Sbjct: 165 TMTLEYEYVPFPEDYEILVFDT---GVKRELASSEYNERR------------------QE 203
Query: 290 AISKVKTLSDVEGLCVAFAGKNGSDDPFLAVKEFLHEEPYMAKDIEKIIEEKLSSIFANS 349
+K L GK S + V E +D+ K+
Sbjct: 204 CEEALKIL-----------GKKSSKE----VTE---------EDLSKLPP---------- 229
Query: 350 SSSLDVLNAAKHYKLHQRAAHVYSEAKRVYAFKDTVYSNLSDEDKLRRLGDLMNDSHHSC 409
L +RA +V E +RV +D L + D + LG+L+ +SH
Sbjct: 230 -------------LLRKRAGYVLRENERVLKVRDA----LKEGD-IETLGELLTESHWDL 271
Query: 410 SVLYECSCPELEELVTVCRDNGALGARLTGAGWGGCAVVLVKE 452
+ YE SC EL+ V + GA GARLTGAG+GG A+ LV +
Sbjct: 272 ADNYEVSCEELDFFVEFALELGAYGARLTGAGFGGSAIALVDK 314
>gnl|CDD|204502 pfam10509, GalKase_gal_bdg, Galactokinase galactose-binding
signature. This is the highly conserved galactokinase
signature sequence which appears to be present in all
galactokinases irrespective of how many other ATP
binding sites, etc that they carry. The function of
this domain appears to be to bind galactose, and the
domain is normally at the N-terminus of the enzymes,
EC:2.7.1.6. This domain is associated with the families
GHMP_kinases_C, pfam08544 and GHMP_kinases_N,
pfam00288.
Length = 52
Score = 95.6 bits (239), Expect = 1e-24
Identities = 29/51 (56%), Positives = 34/51 (66%)
Query: 36 KSKFIQIFGHAPDVYARSPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRK 86
+KF + FG P+ A +PGRVNLIGEH DY G VLP AI DT VA+ K
Sbjct: 1 LAKFEEFFGVEPEGVASAPGRVNLIGEHTDYNGGFVLPAAINLDTYVAVSK 51
>gnl|CDD|179063 PRK00555, PRK00555, galactokinase; Provisional.
Length = 363
Score = 86.1 bits (213), Expect = 2e-18
Identities = 68/231 (29%), Positives = 97/231 (41%), Gaps = 18/231 (7%)
Query: 53 SPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHVSGETEKVLKIANVSDKYSLCTYPA 112
+PGR+NLIGEH DY LP+A+ Q T+V + A+ S + L T P
Sbjct: 7 APGRINLIGEHTDYNLGFALPIALPQRTVVTFTPEHTDAITASSDRADGSARIPLDTTPG 66
Query: 113 EPDQELDLKHHQWGHYFICGYKGFYEYVKAKGLDVGPPV-GLDILVDGIVPTGSGLSSSA 171
+ + G+ + V G PV G + + V GSGLSSSA
Sbjct: 67 Q----------------VTGWAAYAAGVIWALRGAGHPVPGGAMSITSDVEIGSGLSSSA 110
Query: 172 AFVCSSTIALMAAFGVEVPKKEIAQLTCECER-YIGAQSGGMDQAISIMAKSGFAELIDF 230
A C+ A+ AA G + + E A+L E Y+GA +G +DQ ++ A LIDF
Sbjct: 111 ALECAVLGAVGAATGTRIDRLEQARLAQRAENEYVGAPTGLLDQLAALFGAPKTALLIDF 170
Query: 231 NPIRATDVQLPAGGTFVIAHSLAESLKAVTAATNYNNRVVECRLAAIVLGI 281
+ V V+ + + A Y R C AA LG+
Sbjct: 171 RDLTVRPVAFDPDAAGVVLLLMDSRARHRHAGGEYAARRASCERAAADLGV 221
Score = 61.8 bits (150), Expect = 2e-10
Identities = 38/113 (33%), Positives = 54/113 (47%), Gaps = 7/113 (6%)
Query: 342 LSSIFANSSSSLDVLNAAKHYKLHQRAAHVYSEAKRVYAFKDTVYSNLSDEDKLRRLGDL 401
+SS+ A L L A +RA HV +E +RV F L+D D G L
Sbjct: 221 VSSLRAVQDRGLAALGAIADPIDARRARHVLTENQRVLDFAAA----LADSD-FTAAGQL 275
Query: 402 MNDSHHSCSVLYECSCPELEELV-TVCRDNGALGARLTGAGWGGCAVVLVKES 453
+ SH S +E + ++ + + R GALGAR+TG G+GGC + LV
Sbjct: 276 LTASHASMRDDFEITTERIDLIADSAVR-AGALGARMTGGGFGGCVIALVPAD 327
>gnl|CDD|215466 PLN02865, PLN02865, galactokinase.
Length = 423
Score = 85.2 bits (211), Expect = 5e-18
Identities = 103/445 (23%), Positives = 165/445 (37%), Gaps = 108/445 (24%)
Query: 35 LKSKFIQIFGHAPD--VYARSPGRVNLIGEHIDYEGYSVLPMAIRQ----------DTIV 82
++ + + G SP R+ +G HID++G +V M I + D V
Sbjct: 15 IRERVAAMSGRNSGEVRVVVSPYRICPLGAHIDHQGGTVSAMTINKGILLGFVPSGDPEV 74
Query: 83 AIRKHVSGETEKVLKIANVSDKYSLCTYPAEPDQELDLKHHQWGHYFICGYKGFYEYVKA 142
+R S + E ++ ++ + ++ +E + WG Y +G +++
Sbjct: 75 LLR---SAQFEGEVRFRVDEIQHPIANVSSDSKEESN-----WGDY----ARGAVYALQS 122
Query: 143 KGLDV---------GPPVGLDILVDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKE 193
+G + G GLD SGLSSSAA + +AL A + V ++
Sbjct: 123 RGHALSQGITGYISGSE-GLD---------SSGLSSSAAVGVAYLLALENANNLTVSPED 172
Query: 194 IAQLTCECE-RYIGAQSGGMDQAISIMAKSGFAELIDFNPIRATDVQLPAGGT-----FV 247
+L E Y+G ++G +DQ+ ++++ G +D + V L F
Sbjct: 173 NIELDRLIENEYLGLRNGILDQSAILLSRYGCLTFMDCKTLDHKLVSLQFQQPGGEKPFK 232
Query: 248 IAHSLAESLKAVTAATNYNNRVVECRLAAIVLGIKLGMKPQEAISKVKTLSDVEGLCVAF 307
I + + A+T YN RV EC+ AA L L
Sbjct: 233 ILLAFSGLRHALTNKPGYNLRVSECQEAARFL-----------------------LE--- 266
Query: 308 AGKNGSDDPFLAVKEFLHEEPYMAKDIEKIIEEKLSSIFANSSSSLDVLNAAKHYKLHQR 367
A N +P L E E + K +E L+ +R
Sbjct: 267 ASGNDELEPLLCNVEPEVYEAHKCK-----LEAVLA----------------------RR 299
Query: 368 AAHVYSEAKRVYAFKDTVYSNLSDEDKLRRLGDLMNDSHHSCSVLYECSCPELEELVTVC 427
A H +SE RV + S L G L++ S S YEC C L +L +
Sbjct: 300 AEHYFSENMRVIKGVEAWASG-----NLEEFGKLISASGLSSIENYECGCEPLIQLYEIL 354
Query: 428 -RDNGALGARLTGAGWGGCAVVLVK 451
+ G GAR +GAG+ GC V V
Sbjct: 355 LKAPGVYGARFSGAGFRGCCVAFVD 379
>gnl|CDD|215839 pfam00288, GHMP_kinases_N, GHMP kinases N terminal domain. This
family includes homoserine kinases, galactokinases and
mevalonate kinases.
Length = 67
Score = 64.5 bits (158), Expect = 2e-13
Identities = 27/66 (40%), Positives = 39/66 (59%), Gaps = 1/66 (1%)
Query: 154 DILVDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECERYIGAQSGGMD 213
DI ++ +P G+GL SSAA + +AL FG+ + K+E+A+L E E IG S G D
Sbjct: 1 DIEIESNIPLGAGLGSSAALAVALLLALNELFGLPLSKEELARLALEAEGAIGVNS-GDD 59
Query: 214 QAISIM 219
A S+
Sbjct: 60 VAASVY 65
>gnl|CDD|240351 PTZ00298, PTZ00298, mevalonate kinase; Provisional.
Length = 328
Score = 68.3 bits (167), Expect = 1e-12
Identities = 32/91 (35%), Positives = 43/91 (47%), Gaps = 12/91 (13%)
Query: 363 KLHQRAAHVYSEAKRVYAFKDTVYSNLSDEDKLRRLGDLMNDSHHSCSVLYECSCPELEE 422
+L + SEAK + L R+G+LMN +H C L SC EL+
Sbjct: 218 RLLENYNACVSEAKEALQKGN-----------LFRVGELMNANHDLCQKL-TVSCRELDS 265
Query: 423 LVTVCRDNGALGARLTGAGWGGCAVVLVKES 453
+V CR GALGA+++G G GG V L
Sbjct: 266 IVQTCRTYGALGAKMSGTGRGGLVVALAASE 296
>gnl|CDD|233017 TIGR00549, mevalon_kin, mevalonate kinase. This model represents
mevalonate kinase, the third step in the mevalonate
pathway of isopentanyl pyrophosphate (IPP) biosynthesis.
IPP is a common intermediate for a number of pathways
including cholesterol biosynthesis. This model covers
enzymes from eukaryotes, archaea and bacteria. The
related enzyme from the same pathway, phosphmevalonate
kinase, serves as an outgroup for this clade. Paracoccus
exhibits two genes within the
phosphomevalonate/mevalonate kinase family, one of which
falls between trusted and noise cutoffs of this model.
The degree of divergence is high, but if the trees
created from this model are correct, the proper names of
these genes have been swapped [Central intermediary
metabolism, Other].
Length = 274
Score = 64.2 bits (157), Expect = 2e-11
Identities = 47/199 (23%), Positives = 74/199 (37%), Gaps = 25/199 (12%)
Query: 53 SPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHVSGETEKVLKIANVSDKYSLCTYPA 112
+PG++ L GEH G + I T V + + S + ++
Sbjct: 1 APGKIILFGEHAVVYGEPAIAAPIPLRTTVTVIE--SSDGFSFIESD------LGRGSLD 52
Query: 113 EPDQELDLKHHQWGHYFICGYKGFYEYVKAKGLDVGPPVGLDILVDGIVPTGSGLSSSAA 172
+ ELD + + + P L+I +D +P G GL SSAA
Sbjct: 53 DAPDELDGLVS-------YVAEALSYFSELN------PPPLEITIDSEIPPGRGLGSSAA 99
Query: 173 FVCSSTIALMAAFGVEVPKKEIAQLTCECERYIGAQSGGMDQAISIMAKSGFAELIDFNP 232
+ AL FG E+ K+E+A+L E E+ + G+D A S + E
Sbjct: 100 VAVALIRALADYFGSELSKEELAELANEAEKIAHGKPSGIDTATSTSGGPVYFEK-GEGE 158
Query: 233 IRATDVQLPAGGTFVIAHS 251
+ G FVIA +
Sbjct: 159 ---FTKLISLDGYFVIADT 174
Score = 62.7 bits (153), Expect = 5e-11
Identities = 26/60 (43%), Positives = 36/60 (60%), Gaps = 7/60 (11%)
Query: 393 DKLRRLGDLMNDSH---HSCSVLYECSCPELEELVTVCRDNGALGARLTGAGWGGCAVVL 449
+ LG+LMN + + V S P+L++LV + R GALGA+LTGAG GGC + L
Sbjct: 219 GDVESLGELMNINQGLLKALGV----SHPKLDQLVEIARKAGALGAKLTGAGGGGCMIAL 274
>gnl|CDD|240347 PTZ00290, PTZ00290, galactokinase; Provisional.
Length = 468
Score = 65.2 bits (159), Expect = 2e-11
Identities = 53/202 (26%), Positives = 85/202 (42%), Gaps = 40/202 (19%)
Query: 49 VYARSPGRVNLIGEHIDYEGYSVLPMAIRQDT--IVAIRKHVSGETEKVLKIANVSDKYS 106
++ +PGRVN IGEH+DY G V P A+ + +V KH + L+ A +D++
Sbjct: 38 LFTFAPGRVNFIGEHVDYMGGYVCPAAVLEGCHILVGRVKHF---CDHKLRFATETDEH- 93
Query: 107 LCTYPAEPDQELDLKHHQWGHYFICGYKGFYEYVKAKGLDVGPPVGLDILVDGIVPTGSG 166
D KH++ F+ G +D G+ ++V G +P G+G
Sbjct: 94 -----FVLDHLGGAKHNKAWTTFVRGAATLRLNRLGVAIDAPSLQGVCMVVHGTLPMGAG 148
Query: 167 LSSSAAFVCSSTIALMAAFGVEV---------------------PKKEIAQLTCECER-- 203
+S+SA+F +AL+ A V K+E+ +L + R
Sbjct: 149 MSASASF----GVALLNAINTVVTRRYKGCPTSPGRRYSILPPMSKEELIELAKQARRIE 204
Query: 204 --YIGAQSGGMDQAISIMAKSG 223
+ G G MDQ IS A+
Sbjct: 205 TEFCGVNVGIMDQFISAFAEED 226
Score = 49.4 bits (118), Expect = 2e-06
Identities = 22/68 (32%), Positives = 41/68 (60%), Gaps = 1/68 (1%)
Query: 389 LSDEDKLRRLGDLMNDSHHSCSVLYECSCPELEEL-VTVCRDNGALGARLTGAGWGGCAV 447
LS E++ R+ G+++N H L + + PEL+ + + + G G R+ G G+GGC +
Sbjct: 356 LSREERFRKAGEILNAGHQGMRDLMKITTPELDFIHELINEEKGVAGGRMMGGGFGGCII 415
Query: 448 VLVKESIV 455
+L+K++ V
Sbjct: 416 LLLKKNAV 423
>gnl|CDD|224493 COG1577, ERG12, Mevalonate kinase [Lipid metabolism].
Length = 307
Score = 60.8 bits (148), Expect = 3e-10
Identities = 48/202 (23%), Positives = 78/202 (38%), Gaps = 25/202 (12%)
Query: 49 VYARSPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHVSGETEKVLKIANVSDKYSLC 108
+ +PG++ L GEH GY + AI +R V+ KI V + L
Sbjct: 1 ISVSAPGKLILFGEHAVVYGYPAIAAAI------DLRVTVTISESDSNKI--VIESSDLK 52
Query: 109 TYPAEPDQELDLKHHQWGHYFICGYKGFYEYVKAKGLDVGPPVGLDILVDGIVPTGSGLS 168
+ E D++ Y + E + + +D +P G+GL
Sbjct: 53 SSTLERDEDEG--------YIQAAVRLASELLN-----QSSLKPFSLEIDSEIPIGAGLG 99
Query: 169 SSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECERYIGAQSGGMDQAISIMAKSGFAELI 228
SSAA + AL A FGVE+ +E+A+L + E + ++ G+D A G
Sbjct: 100 SSAAVSVAVIKALSAYFGVELSPEELAKLANKVELIVQGKASGIDIATITY--GGLVAFK 157
Query: 229 DFNPIRATDVQLPAGGTFVIAH 250
+++ GT VI
Sbjct: 158 KGFDF--EKLEIELLGTLVIGD 177
Score = 59.6 bits (145), Expect = 8e-10
Identities = 29/64 (45%), Positives = 35/64 (54%), Gaps = 7/64 (10%)
Query: 391 DEDKLRRLGDLMNDSHHSCSVLYEC---SCPELEELVTVCRDNGALGARLTGAGWGGCAV 447
LG+LMN + L + S PEL+ELV R GALGA+LTGAG GGC +
Sbjct: 221 QTGDFEELGELMNINQG----LLKALGVSTPELDELVEAARSLGALGAKLTGAGGGGCII 276
Query: 448 VLVK 451
L K
Sbjct: 277 ALAK 280
>gnl|CDD|219894 pfam08544, GHMP_kinases_C, GHMP kinases C terminal. This family
includes homoserine kinases, galactokinases and
mevalonate kinases.
Length = 86
Score = 52.9 bits (127), Expect = 4e-09
Identities = 23/60 (38%), Positives = 35/60 (58%), Gaps = 2/60 (3%)
Query: 395 LRRLGDLMNDSHHSC--SVLYECSCPELEELVTVCRDNGALGARLTGAGWGGCAVVLVKE 452
L LG+L+N++ S + PEL+EL+ R+ GALGA+L+G+G G L K+
Sbjct: 10 LELLGELLNENALSLEPLLYLGILSPELDELLEELRELGALGAKLSGSGGGPTVFALFKD 69
>gnl|CDD|179677 PRK03926, PRK03926, mevalonate kinase; Provisional.
Length = 302
Score = 54.3 bits (131), Expect = 3e-08
Identities = 26/58 (44%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 393 DKLRRLGDLMNDSHHSCSVLYECSCPELEELVTVCRDNGALGARLTGAGWGGCAVVLV 450
LG+LMN + L S EL EL+ R GALGA++TGAG GGC V L
Sbjct: 211 GDYVSLGELMNINQGLLDAL-GVSTKELSELIYAARTAGALGAKITGAGGGGCMVALA 267
Score = 47.0 bits (112), Expect = 8e-06
Identities = 25/84 (29%), Positives = 40/84 (47%), Gaps = 3/84 (3%)
Query: 139 YVKA---KGLDVGPPVGLDILVDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIA 195
YV A K + G+ + + +P GSGL SSAA ++ AL G+ + +EIA
Sbjct: 59 YVSAAIEKMREEADKDGVTVSITSQIPVGSGLGSSAAVTVATIGALNRLLGLGLSLEEIA 118
Query: 196 QLTCECERYIGAQSGGMDQAISIM 219
+L + E + + D +S M
Sbjct: 119 KLGHKVELLVQGAASPTDTYVSTM 142
>gnl|CDD|224599 COG1685, COG1685, Archaeal shikimate kinase [Amino acid transport
and metabolism / Coenzyme metabolism].
Length = 278
Score = 41.2 bits (97), Expect = 6e-04
Identities = 19/51 (37%), Positives = 31/51 (60%)
Query: 147 VGPPVGLDILVDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIAQL 197
G P+G+++ V+ +P GSGL SS+A + A++ A G E+ EI +L
Sbjct: 65 YGIPLGVEVEVESEIPVGSGLKSSSAASNALVKAVLKALGEEIDDFEILRL 115
>gnl|CDD|225325 COG2605, COG2605, Predicted kinase related to galactokinase and
mevalonate kinase [General function prediction only].
Length = 333
Score = 40.8 bits (96), Expect = 0.001
Identities = 18/77 (23%), Positives = 31/77 (40%), Gaps = 6/77 (7%)
Query: 378 VYAFKDTVYSNLSDEDKLRRLGDLMNDSHHSCSVLYE-CSCPELEELVTVCRDNGALGAR 436
Y KD + N + G +++ + L S ++ + + NGA G +
Sbjct: 230 AYEMKDALVRN-----DIPEFGQILDRGWEAKKKLSSRISNDAIDRIYELALKNGAYGGK 284
Query: 437 LTGAGWGGCAVVLVKES 453
L+GAG GG + S
Sbjct: 285 LSGAGGGGFLLFFCDPS 301
Score = 40.1 bits (94), Expect = 0.002
Identities = 48/188 (25%), Positives = 67/188 (35%), Gaps = 32/188 (17%)
Query: 52 RSPGRVNLIGEHIDYEGY------SVLPMAIRQDTIVAIRKHVSGETEKVLKIANVSDKY 105
R+P R+ G D E Y +VL I + V I K E I D+
Sbjct: 5 RAPLRITFGGGGTDVEPYCSKHGGAVLNATIDKYIYVTIEKGFDDE------IRVRYDRT 58
Query: 106 SLCTYPAEPDQELDLKHHQWGHYFICGYKGFYEYVKAKGLDVGPPVGLDILVDGIVPTGS 165
L+ +H + K + + G P+ L D P GS
Sbjct: 59 EFV------KSYLENEH---KPLVVESLKRDF-----LEFNGGTPIELHTQSD--APPGS 102
Query: 166 GLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECER-YIGAQSGGMDQAISIMAKSGF 224
GL SS+AFV + AL A G + E+A+ E ER + G DQ A G
Sbjct: 103 GLGSSSAFVVALLNALHAWKGESLGPYELAREAYEIEREDLKIVGGKQDQ---YAAAFGG 159
Query: 225 AELIDFNP 232
++F
Sbjct: 160 FNFMEFRG 167
>gnl|CDD|226917 COG4542, PduX, Protein involved in propanediol utilization, and
related proteins (includes coumermycin biosynthetic
protein), possible kinase [Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 293
Score = 40.2 bits (94), Expect = 0.001
Identities = 17/51 (33%), Positives = 29/51 (56%)
Query: 152 GLDILVDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECE 202
G+D+L+ +P G G++SS A + ++ A G E+ + EIA+L E
Sbjct: 83 GIDLLLQSSIPVGKGMASSTADLVATARATARFLGRELRESEIAKLCVSIE 133
>gnl|CDD|215363 PLN02677, PLN02677, mevalonate kinase.
Length = 387
Score = 39.0 bits (91), Expect = 0.004
Identities = 49/216 (22%), Positives = 84/216 (38%), Gaps = 55/216 (25%)
Query: 48 DVYARSPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHVSGETEK--VLKIANVSDKY 105
+V AR+PG++ L GEH G + + AI T V++R S E + L++ ++ ++
Sbjct: 2 EVKARAPGKIILAGEHAVVHGSTAVAAAIDLYTYVSLRFPPSAENDDTLKLQLKDLGLEF 61
Query: 106 S-------------LCTYPAEP----------------DQELDLKHHQWGHYFICGYKGF 136
S P+ P +Q + + W G F
Sbjct: 62 SWPLARIKEALPDLGTPCPSTPTSCSEETLKSIAALVEEQNIP-EAKIW---LSSGVSAF 117
Query: 137 -YEYVKAKGLDVGPPVGLDILVDGIVPTGSGLSSSAAFVCSSTIALMAAFG--------- 186
+ Y G + ++V +P GSGL SSAAF + + AL+AA
Sbjct: 118 LWLYTSILGFNPA-----TVVVTSELPLGSGLGSSAAFCVALSAALLAASDSISVSTGGN 172
Query: 187 ----VEVPKKEIA-QLTCECERYIGAQSGGMDQAIS 217
++ E+ + E E+ I + G+D +S
Sbjct: 173 GWSSLDETDLELVNKWAFEGEKIIHGKPSGIDNTVS 208
Score = 28.3 bits (63), Expect = 9.3
Identities = 21/63 (33%), Positives = 30/63 (47%), Gaps = 9/63 (14%)
Query: 390 SDEDKLRRLGDLMNDSHHSCSVLYECSCPELEELVTVCRDNGA--LGARLTGAGWGGCAV 447
E+KL+ L + MN L +C + TV R L ++LTGAG GGC +
Sbjct: 291 EKEEKLKELME-MNQG------LLQCMGVSHSSIETVLRTTLKYKLVSKLTGAGGGGCVL 343
Query: 448 VLV 450
L+
Sbjct: 344 TLL 346
>gnl|CDD|233637 TIGR01920, Shik_kin_archae, shikimate kinase. This model
represents the shikimate kinase (SK) gene found in
archaea which is only distantly related to homoserine
kinase (thrB) and not atr all to the bacterial SK
enzyme. The SK from M. janaschii has been overexpressed
in E. coli and characterized. SK catalyzes the fifth
step of the biosynthesis of chorismate from
D-erythrose-4-phosphate and phosphoenolpyruvate [Amino
acid biosynthesis, Aromatic amino acid family].
Length = 261
Score = 38.2 bits (89), Expect = 0.006
Identities = 25/81 (30%), Positives = 41/81 (50%), Gaps = 1/81 (1%)
Query: 140 VKAKGLDVGPPVGLDILVDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTC 199
+ A G GL++ V+ +P GSGL SS+A V + A++ A GVE+ +I +L
Sbjct: 52 LTAIRSKFGIVDGLEVEVESEIPAGSGLKSSSALVNALVEAVLKAKGVEIDDIDILRLGA 111
Query: 200 ECERYIG-AQSGGMDQAISIM 219
+ G + +G D A +
Sbjct: 112 RLSKDAGLSVTGAFDDAAASY 132
>gnl|CDD|234906 PRK01123, PRK01123, shikimate kinase; Provisional.
Length = 282
Score = 36.8 bits (86), Expect = 0.015
Identities = 16/59 (27%), Positives = 28/59 (47%)
Query: 148 GPPVGLDILVDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECERYIG 206
G G + +P SGL SS+A ++ +A + A G ++ +I +L + R G
Sbjct: 71 GIDYGATVRTKSEIPLASGLKSSSAAANATVLATLDALGEDLDDLDILRLGVKASRDAG 129
>gnl|CDD|129295 TIGR00191, thrB, homoserine kinase. Homoserine kinase is part of
the threonine biosynthetic pathway.Homoserine kinase is
a member of the GHMP kinases (Galactokinase, Homoserine
kinase, Mevalonate kinase, Phosphomevalonate kinase) and
shares with them an amino-terminal domain probably
related to ATP binding.P.aeruginosa homoserine kinase
seems not to be homologous (see PROSITE:PDOC0054) [Amino
acid biosynthesis, Aspartate family].
Length = 302
Score = 36.6 bits (85), Expect = 0.018
Identities = 16/72 (22%), Positives = 34/72 (47%), Gaps = 3/72 (4%)
Query: 133 YKGFYEYVKAKGLDVGPPVGLDILVDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPKK 192
Y+ ++ G+ + P + + ++ +P G GL SSAA + ++ A G+ + K+
Sbjct: 64 YQVAKRFLDQLGIRMPP---VKVTLEKNIPLGRGLGSSAAAIVAALAAANELCGLPLSKE 120
Query: 193 EIAQLTCECERY 204
+ E E +
Sbjct: 121 RLLDYASELEGH 132
>gnl|CDD|223161 COG0083, ThrB, Homoserine kinase [Amino acid transport and
metabolism].
Length = 299
Score = 36.0 bits (84), Expect = 0.033
Identities = 19/58 (32%), Positives = 31/58 (53%)
Query: 146 DVGPPVGLDILVDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECER 203
+G G+ I ++ +P G GL SSAA + ++ A G+ + K+E+ QL E E
Sbjct: 71 ALGIEAGVKIRIEKGIPLGRGLGSSAASIVAALAAANELAGLPLSKEELLQLALEIEG 128
Score = 28.3 bits (64), Expect = 9.1
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 418 PELEELVTVCRDNGALGARLTGAG 441
P E+ + GALGA L+GAG
Sbjct: 230 PGYAEVREAALEAGALGATLSGAG 253
>gnl|CDD|236995 PRK11824, PRK11824, polynucleotide phosphorylase/polyadenylase;
Provisional.
Length = 693
Score = 33.9 bits (79), Expect = 0.21
Identities = 13/20 (65%), Positives = 15/20 (75%), Gaps = 1/20 (5%)
Query: 168 SSSAAFVCSSTIALMAAFGV 187
SSS A VC S++ALM A GV
Sbjct: 437 SSSMASVCGSSLALMDA-GV 455
>gnl|CDD|215248 PLN02451, PLN02451, homoserine kinase.
Length = 370
Score = 33.2 bits (76), Expect = 0.28
Identities = 18/52 (34%), Positives = 28/52 (53%)
Query: 151 VGLDILVDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECE 202
VGL + + +P GSGL SSAA ++ +A+ FG + K ++ E E
Sbjct: 133 VGLSLSLHKGLPLGSGLGSSAASAAAAAVAVNELFGSPLGKDDLVLAGLESE 184
>gnl|CDD|234920 PRK01212, PRK01212, homoserine kinase; Provisional.
Length = 301
Score = 32.8 bits (76), Expect = 0.29
Identities = 24/61 (39%), Positives = 33/61 (54%), Gaps = 6/61 (9%)
Query: 146 DVGPPVGLDILVDGIVPTGSGLSSSAAFVCSSTIALMAA---FGVEVPKKEIAQLTCECE 202
+G P GL I ++ +P G GL SSAA S L+AA G+ + K+E+ QL E E
Sbjct: 75 KLGKPPGLRIELEKNIPLGRGLGSSAA---SIVAGLVAANELAGLPLSKEELLQLATEGE 131
Query: 203 R 203
Sbjct: 132 G 132
Score = 28.6 bits (65), Expect = 7.7
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 418 PELEELVTVCRDNGALGARLTGAG 441
P E+ + GALGA ++GAG
Sbjct: 234 PGFAEVRQAALEAGALGAGISGAG 257
>gnl|CDD|224106 COG1185, Pnp, Polyribonucleotide nucleotidyltransferase
(polynucleotide phosphorylase) [Translation, ribosomal
structure and biogenesis].
Length = 692
Score = 32.9 bits (76), Expect = 0.40
Identities = 15/34 (44%), Positives = 18/34 (52%), Gaps = 4/34 (11%)
Query: 163 TGSGLSSSAAFVCSSTIALMAAFGVEVP-KKEIA 195
S SSS A VC ++ALM A VP K +A
Sbjct: 430 LESNGSSSMASVCGGSLALMDA---GVPIKAPVA 460
>gnl|CDD|143280 cd05872, Ig_Sema4B_like, Immunoglobulin (Ig)-like domain of the
class IV semaphorin Sema4B. Ig_Sema4B_like;
Immunoglobulin (Ig)-like domain of Sema4B_like. Sema4B
is a Class IV semaphorin. Semaphorins are classified
based on structural features additional to the Sema
domain. Sema4B has extracellular Sema and Ig domains, a
transmembrane domain and a short cytoplasmic domain.
Sema4B has been shown to preferentially regulate the
development of the postsynaptic specialization at the
glutamatergic synapses. This cytoplasmic domain includes
a PDZ-binding motif upon which the synaptic localization
of Sem4B is dependent. Sema4B is a ligand of CLCP1,
CLCP1 was identified in an expression profiling
analysis, which compared a highly metastic lung cancer
subline with its low metastic parental line. Sema4B was
shown to promote CLCP1 endocytosis, and their
interaction is a potential target for therapeutic
intervention of metastasis.
Length = 85
Score = 29.7 bits (67), Expect = 0.69
Identities = 9/51 (17%), Positives = 19/51 (37%), Gaps = 4/51 (7%)
Query: 144 GLDVGPPVGLDILVDGIVPTGSGLSSSAAFVCSS----TIALMAAFGVEVP 190
G + + DG++ + S + C S L+A++ + V
Sbjct: 33 GTPLNAQFSYRVGTDGLLILVTSPEHSGTYRCYSEEEGFQQLVASYSLNVV 83
>gnl|CDD|234271 TIGR03591, polynuc_phos, polyribonucleotide nucleotidyltransferase.
Members of this protein family are polyribonucleotide
nucleotidyltransferase, also called polynucleotide
phosphorylase. Some members have been shown also to have
additional functions as guanosine pentaphosphate
synthetase and as poly(A) polymerase (see model
TIGR02696 for an exception clade, within this family)
[Transcription, Degradation of RNA].
Length = 684
Score = 31.7 bits (73), Expect = 0.91
Identities = 13/25 (52%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 163 TGSGLSSSAAFVCSSTIALMAAFGV 187
S SSS A VC ++ALM A GV
Sbjct: 428 LESNGSSSMASVCGGSLALMDA-GV 451
>gnl|CDD|206769 cd11364, RNase_PH_PNPase_2, Polyribonucleotide
nucleotidyltransferase, repeat 2. Polyribonucleotide
nucleotidyltransferase (PNPase) is a member of the
RNase_PH family, named after the bacterial Ribonuclease
PH, a 3'-5' exoribonuclease. Structurally, all members
of this family form hexameric rings. In the case of
PNPase the complex is a trimer, since each monomer
contains two tandem copies of the domain. PNPase is
involved in mRNA degradation in a 3'-5' direction and in
quality control of ribosomal RNA precursors, with the
second repeat containing the active site. PNPase is part
of the RNA degradosome complex and binds to the
scaffolding domain of the endoribonuclease RNase E.
Length = 223
Score = 30.6 bits (70), Expect = 1.3
Identities = 13/25 (52%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 163 TGSGLSSSAAFVCSSTIALMAAFGV 187
S SSS A VC ++ALM A GV
Sbjct: 110 LESNGSSSMASVCGGSLALMDA-GV 133
>gnl|CDD|237379 PRK13412, fkp, bifunctional
fucokinase/L-fucose-1-P-guanylyltransferase;
Provisional.
Length = 974
Score = 31.0 bits (70), Expect = 1.6
Identities = 45/195 (23%), Positives = 73/195 (37%), Gaps = 43/195 (22%)
Query: 49 VYARSPGRVNLIGEHID------YEGYSVLPMAIR-------QDTIVAIRKH-------- 87
V+ RSP R++L G D Y G +V+ +AI Q + +
Sbjct: 610 VWGRSPVRIDLAGGWTDTPPYCLYSGGNVVNLAIELNGQPPLQVYVKPCSEPHIVLRSID 669
Query: 88 -----VSGETEKVLKIANVSDKYSLCTYPAEPDQELDLKHHQWGHYFICGYKGFYEYVKA 142
V E++ V +S+ P L L + Y E +KA
Sbjct: 670 LGAMEVVRTNEELRDYKKVGSPFSI------PKAALCLAGFAPR-FSAESYASLEEQLKA 722
Query: 143 KGLDVGPPVGLDILVDGIVPTGSGLSSSAAFVCSSTI--ALMAAFGVEVPKKEIAQLTCE 200
G G++I + +P GSGL +S+ + ++T+ A+ G+ K EI T
Sbjct: 723 FG------SGIEITLLAAIPAGSGLGTSS--ILAATVLGAISDFCGLAWDKNEICNRTLV 774
Query: 201 CERYIGAQSGGMDQA 215
E+ + G DQ
Sbjct: 775 LEQLLTTGGGWQDQY 789
>gnl|CDD|237412 PRK13527, PRK13527, glutamine amidotransferase subunit PdxT;
Provisional.
Length = 200
Score = 30.2 bits (69), Expect = 1.6
Identities = 16/68 (23%), Positives = 28/68 (41%), Gaps = 9/68 (13%)
Query: 22 GSQLE--EAQLRFGNLKSKFIQIFGHAPDVYARSPGRVNLIGEHIDYEGYSVLPMAIRQD 79
G Q + EA++ L F +F AP + G V ++ + D +A+ Q
Sbjct: 120 GRQRDSFEAEIDLSGLDGPFHAVFIRAP-AITKVGGDVEVLAKLDDR------IVAVEQG 172
Query: 80 TIVAIRKH 87
++A H
Sbjct: 173 NVLATAFH 180
>gnl|CDD|117397 pfam08827, DUF1805, Domain of unknown function (DUF1805). This
domain is found in bacteria and archaea and has an N
terminal tetramerisation region that is composed of beta
sheets.
Length = 58
Score = 27.6 bits (62), Expect = 2.2
Identities = 14/25 (56%), Positives = 16/25 (64%)
Query: 269 VVECRLAAIVLGIKLGMKPQEAISK 293
VVE AA LGIK GM +EA+ K
Sbjct: 33 VVEVTSAARELGIKPGMTGREALEK 57
>gnl|CDD|222027 pfam13288, DXPR_C, DXP reductoisomerase C-terminal domain. This is
the C-terminal domain of the
1-deoxy-D-xylulose-5-phosphate reductoisomerase enzyme.
This domain forms a left handed super-helix.
Length = 118
Score = 28.2 bits (64), Expect = 3.6
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 4/42 (9%)
Query: 319 AVKEFLHEE-PYMAKDIEKIIEEKLSSIFANSSSSL-DVLNA 358
AV FL + ++ DI +I+E+ L + SL D+L A
Sbjct: 71 AVAAFLEGKIGFL--DIARIVEKVLDAHEPIEPPSLEDILEA 110
>gnl|CDD|234731 PRK00343, ipk, 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase;
Provisional.
Length = 271
Score = 29.3 bits (67), Expect = 4.0
Identities = 26/83 (31%), Positives = 41/83 (49%), Gaps = 17/83 (20%)
Query: 148 GPPVGLDILVDGIVPTGSGL---SSSAAFVCSST-IALMAAFGVEVPKKEIAQLTCECER 203
G P+G DI +D +P G GL SS AA +T +AL + + + + E+A+L
Sbjct: 83 GTPLGADISLDKRLPMGGGLGGGSSDAA----TTLVALNRLWQLGLSRDELAEL------ 132
Query: 204 YIGAQSGGMDQAISIMAKSGFAE 226
G + G D + + + FAE
Sbjct: 133 --GLKLGA-DVPVFVRGHAAFAE 152
>gnl|CDD|225912 COG3377, COG3377, Uncharacterized conserved protein [Function
unknown].
Length = 95
Score = 27.4 bits (61), Expect = 4.9
Identities = 14/25 (56%), Positives = 17/25 (68%)
Query: 269 VVECRLAAIVLGIKLGMKPQEAISK 293
+VE AA LGIK GMK +EA+ K
Sbjct: 70 IVEVTSAAEELGIKRGMKGREALEK 94
>gnl|CDD|198412 cd10430, BI-1, BAX inhibitor (BI)-1. Mammalian members of the BAX
inhibitor (BI)-1 like family of small transmembrane
proteins have been shown to have an antiapoptotic effect
either by stimulating the antiapoptotic function of
Bcl-2, a well-characterized oncogene, or by inhibiting
the proapoptotic effect of Bax, another member of the
Bcl-2 family. Their broad tissue distribution and high
degree of conservation suggests an important regulatory
role. In plants, BI-1 like proteins play a role in
pathogen resistance.
Length = 213
Score = 28.7 bits (65), Expect = 5.0
Identities = 14/42 (33%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 143 KGLDVGPPVGLDILVD-GIVPTGSGLSSSAAFVCSSTIALMA 183
G +GP + L I ++ I+ T + L ++ F C S AL+A
Sbjct: 78 TGASLGPLLDLVIAINPSIIVT-AFLGTAVIFACFSLAALLA 118
>gnl|CDD|237872 PRK14968, PRK14968, putative methyltransferase; Provisional.
Length = 188
Score = 28.3 bits (64), Expect = 6.2
Identities = 11/57 (19%), Positives = 20/57 (35%), Gaps = 8/57 (14%)
Query: 368 AAHVYSEAKRVYAFKDTVYSNLSDEDKLRRLGDLMNDSHHSCSVLYECSCPELEELV 424
R+ + S+L+ ED++ + V+ E P EEL+
Sbjct: 134 VGRYLKPGGRIL----LLQSSLTGEDEVLE---YLEKLGFEAEVVAEEKFP-FEELI 182
>gnl|CDD|217406 pfam03175, DNA_pol_B_2, DNA polymerase type B, organellar and
viral. Like pfam00136, members of this family are also
DNA polymerase type B proteins. Those included here are
found in plant and fungal mitochondria, and in viruses.
Length = 452
Score = 28.9 bits (65), Expect = 6.4
Identities = 16/94 (17%), Positives = 29/94 (30%), Gaps = 12/94 (12%)
Query: 281 IKLGMKPQEAISKVK-----TLSDVEGLCVAFAGKNGSDD-PFLAVKEFLHEEPYM---- 330
IK+ K + V+ + + L AF + P+ V + +
Sbjct: 37 IKIDFKYKYIKIMVRDSYLLLPTSLRKLAKAFNLEVQKGCFPYDFVNKNYMWDKGGFPIE 96
Query: 331 --AKDIEKIIEEKLSSIFANSSSSLDVLNAAKHY 362
KD ++ I K N + D+ Y
Sbjct: 97 KYWKDFKEYILNKEIWNLKNRPNGYDIRKETIEY 130
>gnl|CDD|237254 PRK12899, secA, preprotein translocase subunit SecA; Reviewed.
Length = 970
Score = 29.0 bits (65), Expect = 7.2
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 6/53 (11%)
Query: 338 IEEKLSSIFANSSSSLDVLNAAKHYKLHQRAAHVYSEAKRVYAFKDTVYSNLS 390
+ EKLS I + VLNA K H + A + + A ++ A TV +N++
Sbjct: 580 VSEKLSRILRQNRIEHTVLNA----KNHAQEAEIIAGAGKLGAV--TVATNMA 626
>gnl|CDD|236476 PRK09354, recA, recombinase A; Provisional.
Length = 349
Score = 28.2 bits (64), Expect = 9.0
Identities = 13/36 (36%), Positives = 19/36 (52%)
Query: 319 AVKEFLHEEPYMAKDIEKIIEEKLSSIFANSSSSLD 354
K++L E P +A +IEK I EKL A + +
Sbjct: 305 NAKQYLKENPELADEIEKKIREKLGLSAAAAEEEEE 340
>gnl|CDD|234267 TIGR03573, WbuX, N-acetyl sugar amidotransferase. This enzyme has
been implicated in the formation of the acetamido moiety
(sugar-NC(=NH)CH3) which is found on some
exopolysaccharides and is positively charged at neutral
pH. The reaction involves ligation of ammonia with a
sugar N-acetyl group, displacing water. In E. coli (O145
strain) and Pseudomonas aeruginosa (O12 strain) this
gene is known as wbuX and ifnA respectively and likely
acts on sialic acid. In Campylobacter jejuni, the gene
is known as pseA and acts on pseudaminic acid in the
process of flagellin glycosylation. In other Pseudomonas
strains and various organisms it is unclear what the
identity of the sugar substrate is, and in fact, the
phylogenetic tree of this family sports a considerably
deep branching suggestive of possible major differences
in substrate structure. Nevertheless, the family is
characterized by a conserved tetracysteine motif
(CxxC.....[GN]xCxxC) possibly indicative of a metal
binding site, as well as an invariable contextual
association with homologs of the HisH and HisF proteins
known as WbuY and WbuZ, respectively. These two proteins
are believed to supply the enzyme with ammonium by
hydrolysis of glutamine and delivery through an ammonium
conduit.
Length = 343
Score = 28.0 bits (63), Expect = 9.8
Identities = 18/87 (20%), Positives = 33/87 (37%), Gaps = 4/87 (4%)
Query: 61 GEHIDYEGYSVLPMAIRQDTIVAIRKHVSGETEKVLKIANVSDKYSLCTYPAEPDQELD- 119
GE+I E + D ++ + K +S++ L Y ++L
Sbjct: 167 GENIAEEYGGDSEEELNPDEWKYNKRGIDAANIKDFSDKGLSER-DLYAYTYPDKEKLQS 225
Query: 120 --LKHHQWGHYFICGYKGFYEYVKAKG 144
+K G+Y K YE++K +G
Sbjct: 226 KGVKVIYLGYYVKWDKKKNYEFIKKRG 252
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
0.318 0.135 0.393
Gapped
Lambda K H
0.267 0.0880 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 23,288,766
Number of extensions: 2292979
Number of successful extensions: 2211
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2172
Number of HSP's successfully gapped: 72
Length of query: 456
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 356
Effective length of database: 6,502,202
Effective search space: 2314783912
Effective search space used: 2314783912
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 61 (27.0 bits)