RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10135
(351 letters)
>1zth_A RIO1 serine protein kinase; ribosome biogenesis, rRNA, ADP,
manganese, transferase; HET: ADP; 1.89A {Archaeoglobus
fulgidus} PDB: 1zp9_A* 1ztf_A*
Length = 258
Score = 241 bits (616), Expect = 7e-79
Identities = 92/249 (36%), Positives = 136/249 (54%), Gaps = 11/249 (4%)
Query: 3 RIKTKDKHDRATAEQVMDPRTRMILFKLISRGMVSEVNGCISTGKEANVYHASPGANYKI 62
RIK KD +R +V+D RT L+KL ++G ++ + G ISTGKEANV++A + K
Sbjct: 15 RIKEKDGEERKIYAEVLDGRTLKTLYKLSAKGYITAMGGVISTGKEANVFYADGVFDGK- 73
Query: 63 ENLELEKEFAIKIFKTSILVFKDRDKYVNGEFRFRHGYCKKNPRKMVRTWAEKEMRNLTR 122
A+KI++ F D+Y+ G+ RF + +P++ V W EKE RNL R
Sbjct: 74 -----PVAMAVKIYRIETSEFDKMDEYLYGDERFDM--RRISPKEKVFIWTEKEFRNLER 126
Query: 123 MYSEGLNVPKPILLKSHVLLMTFIGEDGWPAAKLKDTP--LTESGACKLYRECVVMMWRL 180
G++VP+P +VLLM FIGED PA L + L E ++ + V + RL
Sbjct: 127 AKEAGVSVPQPYTYMKNVLLMEFIGEDELPAPTLVELGRELKELDVEGIFNDVVENVKRL 186
Query: 181 YNKCHLVHADLSEYNMLVHKATLFIIDVAQSVEHDHPHALQFLRKDCDNVTVFVILNPVS 240
Y + LVHADLSEYN++ ++ ID+ Q+V HP A +L +D N+ F V
Sbjct: 187 YQEAELVHADLSEYNIMYID-KVYFIDMGQAVTLRHPMAESYLERDVRNIIRFFSKYGVK 245
Query: 241 DDDEKIFKK 249
D E++ K+
Sbjct: 246 ADFEEMLKE 254
>1zar_A RIO2 kinase; serine kinase, winged-helix, RIO domain, ADP-Mn
complex, rRNA processing, transferase; HET: ADP; 1.75A
{Archaeoglobus fulgidus} SCOP: a.4.5.56 d.144.1.9 PDB:
1tqi_A* 1tqp_A* 1tqm_A* 1zao_A*
Length = 282
Score = 214 bits (546), Expect = 4e-68
Identities = 50/232 (21%), Positives = 91/232 (39%), Gaps = 29/232 (12%)
Query: 3 RIKTKDKHDRATAEQVMDPRTRMILFKLISRGMVSEVNGCISTGKEANVYHASPGANYKI 62
R+ + D + + L +L+ G V + + GKE+ V++
Sbjct: 58 RVVQNRQKDYEGSTFTFIGLSLYSLHRLVRSGKVDAIGKLMGEGKESAVFNCYSEK---- 113
Query: 63 ENLELEKEFAIKIFKTSILVF-KDRDKYVNGEFRFRHGYCKKNPRKMVRTWAEKEMRNLT 121
E +K K F K ++K G+ F + A E R L
Sbjct: 114 -----FGECVVKFHKVGHTSFKKVKEKRDYGDLHFS---------VLAIRSARNEFRALQ 159
Query: 122 RMYSEGLNVPKPILLKSHVLLMTFIGEDGWPAAKLKDTPLTESGACKLYRECVVMMWRLY 181
++ GL VPK + + +LM I ++++ ++ + + + Y
Sbjct: 160 KLQ--GLAVPKVYAWEGNAVLMELIDAKELYRVRVEN-------PDEVLDMILEEVAKFY 210
Query: 182 NKCHLVHADLSEYNMLVHKATLFIIDVAQSVEHDHPHALQFLRKDCDNVTVF 233
+ +VH DLS+YN+LV + ++IID QSVE + L +D N+ +
Sbjct: 211 H-RGIVHGDLSQYNVLVSEEGIWIIDFPQSVEVGEEGWREILERDVRNIITY 261
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 51.6 bits (123), Expect = 2e-07
Identities = 42/272 (15%), Positives = 69/272 (25%), Gaps = 104/272 (38%)
Query: 32 SRGMVSEVNGCISTGKEANVYHASPGANYKIENLELEKEFAIKIFKTSILVFKDRDKYVN 91
+GM G + +Y S A ++ V+ D +
Sbjct: 1628 EQGM----------GMD--LYKTSKAA----------QD-----------VWNRADNHFK 1654
Query: 92 GEFRFR-HGYCKKNPRKMV--------RTWAEKEMRNLTRMYSEGLNVPKPIL--LKSHV 140
+ F NP + + E + +G + I + H
Sbjct: 1655 DTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHS 1714
Query: 141 LLMTFIGEDGWPAAKLKDT----P--LTESGACKLYRECVVMMWRLYNKCHLVHAD---- 190
TF E G L T P A + L+ AD
Sbjct: 1715 TSYTFRSEKG----LLSATQFTQPALTLMEKA----------AFEDLKSKGLIPADATFA 1760
Query: 191 ---LSEYNMLVHKA-TLFIIDVAQSVEHDHPHALQFLR---------KDCDNVTVFVI-- 235
L EY L A + I + + V F R +D + + +
Sbjct: 1761 GHSLGEYAALASLADVMSIESLVEVV---------FYRGMTMQVAVPRDELGRSNYGMIA 1811
Query: 236 LNPVSDDDEKIFKKWDSDYVTSSDEDEENVVD 267
+NP + S E + VV+
Sbjct: 1812 INP------------GRVAASFSQEALQYVVE 1831
Score = 42.0 bits (98), Expect = 3e-04
Identities = 30/163 (18%), Positives = 57/163 (34%), Gaps = 67/163 (41%)
Query: 185 HLVHADLSEYNMLVHKATLFIIDVAQSVEH-----DHPHALQFLRKDCDNVT---VFVIL 236
L++ DL + N+ + + I V D LR +++ V I+
Sbjct: 437 DLINKDLVKNNVSFNAKDIQI-----PVYDTFDGSD-------LRVLSGSISERIVDCII 484
Query: 237 N-PVSDDDEKIFKKWDSDYVTSSDEDEENVVDFERDINLIKSGQGSSN---TLIYQNIVG 292
PV KW+ T++ +++DF G G ++ L ++N G
Sbjct: 485 RLPV---------KWE----TTTQFKATHILDF---------GPGGASGLGVLTHRNKDG 522
Query: 293 LNADLSGPKLIPELLAQDKDDEETGESSEGDSDSGSEEERGSK 335
+G ++I +A G D +++ G K
Sbjct: 523 -----TGVRVI---VA-------------GTLDINPDDDYGFK 544
Score = 36.2 bits (83), Expect = 0.020
Identities = 36/205 (17%), Positives = 51/205 (24%), Gaps = 113/205 (55%)
Query: 211 SVEH-------DHPHALQFLRKDCDNVTVFV-ILNPVSD----DDEKI--------FKKW 250
S+EH A Q L++ F IL ++ DDE F
Sbjct: 15 SLEHVLLVPTASFFIASQ-LQEQ------FNKILPEPTEGFAADDEPTTPAELVGKF--- 64
Query: 251 DSDYVTSSDEDEEN----------VVDFER------DI-------------------NLI 275
YV+S E + + +FE DI LI
Sbjct: 65 -LGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELI 123
Query: 276 KS------------------------------------GQGSSNT----L-----IYQNI 290
K+ GQG+++ L Y +
Sbjct: 124 KNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVL 183
Query: 291 VGLNADLSGPKLIPELLAQDKDDEE 315
VG S L L + D E
Sbjct: 184 VGDLIKFSAETLSE--LIRTTLDAE 206
Score = 28.1 bits (62), Expect = 5.1
Identities = 32/182 (17%), Positives = 53/182 (29%), Gaps = 72/182 (39%)
Query: 205 IIDVAQSVEHDHPHAL---------QFLRKDCDNVTVFVILNPVSDDDEKIFKKWDSDYV 255
I+D+ ++P L + +R++ + F + EKIFK + +
Sbjct: 1661 ILDIVI----NNPVNLTIHFGGEKGKRIRENYSAMI-FETIVDGKLKTEKIFK--EINEH 1713
Query: 256 TSSDEDEENVVDFERDINLIKSGQGSSNTLIYQNIVGLNADLSGPKLIPELL----AQDK 311
++S F + L+ + Q T Q P L A +
Sbjct: 1714 STS-------YTFRSEKGLLSATQ---FT---Q---------------PALTLMEKAAFE 1745
Query: 312 DDEETGESSEGD--------------SDSGS---EE------ERGSKFVNSARPRDETAE 348
D + G S + E RG + A PRDE
Sbjct: 1746 DLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRG-MTMQVAVPRDELGR 1804
Query: 349 SK 350
S
Sbjct: 1805 SN 1806
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 37.1 bits (85), Expect = 0.008
Identities = 51/337 (15%), Positives = 104/337 (30%), Gaps = 82/337 (24%)
Query: 76 FKTSILVFKDRDKYVNGEFRFRHGY-CKKNPRKMVRTWAEKEMRNLTRMYSEGLNVPKP- 133
F+T ++ +D E F + CK +++E+ ++ +
Sbjct: 9 FETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHI-------IMSKDAV 61
Query: 134 ---------ILLKSHVLLMTFIGED-----GWPAAKLKDTPLTESGACKLYRECVVMMWR 179
+L K ++ F+ E + + +K S ++Y E ++
Sbjct: 62 SGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN 121
Query: 180 ---LYNKCHLVHADL------------SEYNMLVH------KATLFIIDVAQS--VEHDH 216
++ K ++ N+L+ K + +DV S V+
Sbjct: 122 DNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWV-ALDVCLSYKVQCKM 180
Query: 217 PHALQF---LRKDCDNVTVFVILNPVSDDDEKIFKKWDSDYVTSSDEDEENVVDFE---- 269
+ F L+ TV +L K+ + D ++ + SD +
Sbjct: 181 DFKI-FWLNLKNCNSPETVLEMLQ-------KLLYQIDPNWTSRSDHSSNIKLRIHSIQA 232
Query: 270 RDINLIKSGQGSSNTLIYQNI----VGLNA-DLSGPKLIPELLAQDK------DDEETGE 318
L+KS + L+ N+ NA +LS L+ + K T
Sbjct: 233 ELRRLLKSKPYENCLLVLLNVQNAKA-WNAFNLSCKILL---TTRFKQVTDFLSAATTTH 288
Query: 319 SSEGDSDSGSEEERG----SKFVNSARPRDETAESKK 351
S + K+++ RP+D E
Sbjct: 289 ISLDHHSMTLTPDEVKSLLLKYLDC-RPQDLPREVLT 324
>3q60_A ROP5B; pseudokinase, transferase; HET: ATP; 1.72A {Toxoplasma
gondii} PDB: 3q5z_A*
Length = 371
Score = 35.8 bits (82), Expect = 0.017
Identities = 29/218 (13%), Positives = 65/218 (29%), Gaps = 20/218 (9%)
Query: 2 DRIKTKDKHDRATAEQVMDPRTRMILFKLISRGMVSEVNG-CISTGKEANVYHASPGANY 60
+ +K A V + L+S+G + G + V+
Sbjct: 28 EALKEPAAMVEAVTATVWPQNAETTVDSLLSQGERKLKLVEPLRVGDRSVVFLV------ 81
Query: 61 KIENLELEKEFAIKIFKTSILVFKDRDKYVNGEFRFRHGYCKKNPRKMVRTWAEKEMRNL 120
++E ++FA+K+F + + ++ ++P + +
Sbjct: 82 --RDVERLEDFALKVFTMGAENSRSELERLHEATFAAARLLGESPEEARDRRRLLLPSDA 139
Query: 121 TRMYS-----EGLNVPKPILLKSHVLLMTFIGEDGWPAAKLKDTPLTESGACKLYRECVV 175
+ S + + +++LLM D D G + ++
Sbjct: 140 VAVQSQPPFAQLSPGQDDYAVANYLLLMPAASVDLELLFSTLDFVYVFRGDEGILALHIL 199
Query: 176 M--MWRLYNKCH---LVHADLSEYNMLV-HKATLFIID 207
+ RL LVH + N+ + L + D
Sbjct: 200 TAQLIRLAANLQSKGLVHGHFTPDNLFIMPDGRLMLGD 237
>3en9_A Glycoprotease, O-sialoglycoprotein endopeptidase/protein kinase;
endopeptidase activity, protein kinase activity; HET:
TBR; 2.67A {Methanocaldococcus jannaschii} PDB: 3enh_A*
2vwb_A*
Length = 540
Score = 32.7 bits (75), Expect = 0.17
Identities = 32/166 (19%), Positives = 67/166 (40%), Gaps = 29/166 (17%)
Query: 115 KEMRNLTRMYSEGLNVPKPIL----LKSHVLLMTFIGEDGWPAAKLKDTPLTESGACKLY 170
+E R L + G +P P + L + ++M++I KD
Sbjct: 388 REARYLALVKDFG--IPAPYIFDVDLDNKRIMMSYING-----KLAKDVIEDNLDIAYKI 440
Query: 171 RECVVMMWRLYNKCHLVHADLSEYNMLVHKATLFIID--VAQSVEHDHPHALQFLRKDCD 228
E V + +K ++H DL+ N + K +IID + + D A
Sbjct: 441 GEIVGKL----HKNDVIHNDLTTSNFIFDKDL-YIIDFGLGKISNLDEDKA--------V 487
Query: 229 NVTVF--VILNPVSDDDEKIFKKWDSDYVTSSDEDEENVVDFERDI 272
++ VF +L+ + ++I++++ Y + D E +++ +D+
Sbjct: 488 DLIVFKKAVLSTHHEKFDEIWERFLEGYKSVYDRWEI-ILELMKDV 532
>2v2t_A RELB, transcription factor RELB;
4-diphosphocytidyl-2C-methyl-D-erythritol, aquifex
aeolicus, nucleotide-binding, isoprene biosynthesis;
3.05A {Mus musculus} PDB: 3do7_A
Length = 288
Score = 30.8 bits (69), Expect = 0.59
Identities = 13/83 (15%), Positives = 25/83 (30%), Gaps = 1/83 (1%)
Query: 211 SVEHDHPHALQFLRKDCDNVTVFVILNPVSDDDEKIFKKWDSDYVTSSDEDEENVVDFER 270
H + KDC + V L P F V + + +
Sbjct: 75 KDWPHRVHPHSLVGKDCTDGVCRVRLRP-HVSPRHSFNNLGIQCVRKKEIEAAIERKIQL 133
Query: 271 DINLIKSGQGSSNTLIYQNIVGL 293
I+ +G ++ + N+V +
Sbjct: 134 GIDPYNAGSLKNHQEVDMNVVRI 156
>2pyw_A Uncharacterized protein; 5-methylthioribose kinase, plant
methionine recycling, refol transferase; HET: SR1 ADP;
1.90A {Arabidopsis thaliana}
Length = 420
Score = 30.7 bits (68), Expect = 0.70
Identities = 12/58 (20%), Positives = 22/58 (37%), Gaps = 1/58 (1%)
Query: 151 WPAAKLKDTPLTESGACKLYRECVVMMWRLYNKCH-LVHADLSEYNMLVHKATLFIID 207
W + L D L E + + L+H DL +++V + + +ID
Sbjct: 198 WTSPYLDDDAKAVREDSALKLEIAELKSMFCERAQALIHGDLHTGSVMVTQDSTQVID 255
>2o61_A Transcription factor P65/interferon regulatory FA 7/interferon
regulatory factor...; protein-DNA complex,
transcription-DNA complex; 2.80A {Homo sapiens}
Length = 540
Score = 30.5 bits (68), Expect = 0.89
Identities = 15/81 (18%), Positives = 24/81 (29%), Gaps = 2/81 (2%)
Query: 213 EHDHPHALQFLRKDCDNVTVFVILNPVSDDDEKIFKKWDSDYVTSSDEDEENVVDFERDI 272
PH + + KDC + L P D F+ V D ++ + +
Sbjct: 64 PPHRPHPHELVGKDCRDGFYEAELCP--DRCIHSFQNLGIQCVKKRDLEQAISQRIQTNN 121
Query: 273 NLIKSGQGSSNTLIYQNIVGL 293
N + N V L
Sbjct: 122 NPFQVPIEEQRGDYDLNAVRL 142
>1ikn_A P65, protein (NF-kappa-B P65 subunit); transcription factor,
IKB/NFKB complex; 2.30A {Mus musculus} SCOP: b.1.18.1
b.2.5.3 PDB: 1nfi_A 2ram_A* 1ram_A* 2i9t_A 1lei_A*
1le9_A 1le5_A* 1vkx_A* 3gut_A
Length = 286
Score = 29.2 bits (65), Expect = 2.1
Identities = 15/81 (18%), Positives = 23/81 (28%), Gaps = 2/81 (2%)
Query: 213 EHDHPHALQFLRKDCDNVTVFVILNPVSDDDEKIFKKWDSDYVTSSDEDEENVVDFERDI 272
PH + + KDC + L P D F+ V D ++ + +
Sbjct: 63 PPHRPHPHELVGKDCRDGYYEADLCP--DRSIHSFQNLGIQCVKKRDLEQAISQRIQTNN 120
Query: 273 NLIKSGQGSSNTLIYQNIVGL 293
N N V L
Sbjct: 121 NPFHVPIEEQRGDYDLNAVRL 141
>3r70_A Aminoglycoside phosphotransferase; structural genomics, center for
structural genomics of infec diseases, csgid; HET: MSE
ADP PE3; 1.80A {Escherichia coli} PDB: 3r6z_A* 3uzr_A*
4dca_A* 3hav_A* 3ham_A*
Length = 320
Score = 29.0 bits (64), Expect = 2.6
Identities = 19/124 (15%), Positives = 40/124 (32%), Gaps = 19/124 (15%)
Query: 66 ELEKEFAIKIFK-----TSILVFKDRDKYVNGEFRFRHGYCKKNPRKMVRTWAEKEMRNL 120
L K+ I + F ++YV + R VR ++E+
Sbjct: 32 HLNKQIKINELRYLSSGDDSDTFLCNEQYV---VKV-------PKRDSVRISQKRELELY 81
Query: 121 TRMYSEGLNVPKPILLKS--HVLLMTFIGEDGWPAAKLKDTPLTESGACKLYRECVVMMW 178
+ + L+ P ++ +M +I G + L+E L + +
Sbjct: 82 RFLENCKLSYQIPAVVYQSDRFNIMKYI--KGERITYEQYHKLSEKEKDALAYDEATFLK 139
Query: 179 RLYN 182
L++
Sbjct: 140 ELHS 143
Score = 27.0 bits (59), Expect = 8.7
Identities = 11/27 (40%), Positives = 13/27 (48%), Gaps = 1/27 (3%)
Query: 182 NKCHLVHADLSEYNMLVHKATLF-IID 207
LVH D S NM+ LF +ID
Sbjct: 205 YTPCLVHNDFSANNMIFRNNRLFGVID 231
>2vuw_A Serine/threonine-protein kinase haspin; cell cycle, transferase,
CAsp8, nucleotide binding; HET: MSE 5ID MPD; 1.80A {Homo
sapiens} PDB: 3f2n_A* 3e7v_A* 3dlz_A* 3fmd_A* 3iq7_A*
2wb8_A
Length = 336
Score = 28.7 bits (63), Expect = 3.0
Identities = 29/187 (15%), Positives = 54/187 (28%), Gaps = 14/187 (7%)
Query: 21 PRTRMILFKLISRGMVSEVNGCISTGKEANV----YHASPGANYKIENLELEKEFAIKIF 76
P ++ + I G+ EV I+ + N + E I I
Sbjct: 18 PTEKLQRCEKIGEGVFGEVFQTIADHTPVAIKIIAIEGPDLVNGSHQKTFEEILPEIIIS 77
Query: 77 KTSILVFKDRDKYVNGEFRFRHGYC--KKNPRKMVRTWAEKEMRNLTRMYSEGLNVPKPI 134
K L+ + G +C P +++ W G +P
Sbjct: 78 KELSLLSGEVCNRTEGFIGLNSVHCVQGSYPPLLLKAWDHYNSTK-------GSANDRPD 130
Query: 135 LLKSHVLLMTFIGED-GWPAAKLKDTPLTESGACKLYRECVVMMWRLYNKCHLVHADLSE 193
K L + E G +++ + + A + + + H DL
Sbjct: 131 FFKDDQLFIVLEFEFGGIDLEQMRTKLSSLATAKSILHQLTASLAVAEASLRFEHRDLHW 190
Query: 194 YNMLVHK 200
N+L+ K
Sbjct: 191 GNVLLKK 197
>2olc_A MTR kinase, methylthioribose kinase; kinase ADP-2HO complex,
transferase; HET: CPS ADP; 2.00A {Bacillus subtilis}
SCOP: d.144.1.6 PDB: 2pu8_A* 2pui_A* 2pul_A* 2pun_A*
2pup_A*
Length = 397
Score = 27.6 bits (60), Expect = 7.2
Identities = 7/57 (12%), Positives = 16/57 (28%), Gaps = 1/57 (1%)
Query: 168 KLYRECVVMMWRLYNKCH-LVHADLSEYNMLVHKATLFIIDVAQSVEHDHPHALQFL 223
+ E + L+H DL ++ + +ID + +
Sbjct: 210 SVKIEAAKLKKSFLTSAETLIHGDLHTGSIFASEHETKVIDPEFAFYGPIGFDVGQF 266
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.316 0.133 0.389
Gapped
Lambda K H
0.267 0.0503 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,259,326
Number of extensions: 311935
Number of successful extensions: 798
Number of sequences better than 10.0: 1
Number of HSP's gapped: 785
Number of HSP's successfully gapped: 22
Length of query: 351
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 257
Effective length of database: 4,077,219
Effective search space: 1047845283
Effective search space used: 1047845283
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: 58 (26.7 bits)