RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8456
(353 letters)
>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis,
nucleotide-B transferase; HET: MSE; 2.01A
{Staphylococcus aureus}
Length = 219
Score = 187 bits (477), Expect = 2e-58
Identities = 62/202 (30%), Positives = 96/202 (47%), Gaps = 46/202 (22%)
Query: 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVE 212
E I G MFSGK+ ELIRR+RR YA + ++ + A DDRY EKV +H+ + A++ +
Sbjct: 31 ECITGSMFSGKSEELIRRLRRGIYAKQKVVVFKPAIDDRYHKEKVVSHNGNAIEAINISK 90
Query: 213 LNKLIPH-TKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAA 271
++++ H ++DVIGIDE QF F
Sbjct: 91 ASEIMTHDLTNVDVIGIDEVQF----------------------------FD-------- 114
Query: 272 LNVPPPPEFPDVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVC 331
++VS E ++ G V+VA LD F+ F + L+ ++E V KL AVC
Sbjct: 115 ---------DEIVSIVEKLSADGHRVIVAGLDMDFRGEPFEPMPKLMAVSEQVTKLQAVC 165
Query: 332 MSCFRDAAFTKRIGQEKEVRIE 353
C ++ T+R+ K +I+
Sbjct: 166 AVCGSSSSRTQRLINGKPAKID 187
Score = 169 bits (429), Expect = 3e-51
Identities = 51/139 (36%), Positives = 81/139 (58%), Gaps = 2/139 (1%)
Query: 19 RRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIPH-TKDIDVIG 77
RR+RR YA + ++ + A DDRY EKV +H+ + A++ + ++++ H ++DVIG
Sbjct: 47 RRLRRGIYAKQKVVVFKPAIDDRYHKEKVVSHNGNAIEAINISKASEIMTHDLTNVDVIG 106
Query: 78 IDEGQFFPD-VVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCM 136
IDE QFF D +VS E ++ G V+VA LD F+ F + L+ ++E V KL AVC
Sbjct: 107 IDEVQFFDDEIVSIVEKLSADGHRVIVAGLDMDFRGEPFEPMPKLMAVSEQVTKLQAVCA 166
Query: 137 SCFRDAAFTKRIGQEKEVI 155
C ++ T+R+ K
Sbjct: 167 VCGSSSSRTQRLINGKPAK 185
Score = 40.0 bits (94), Expect = 4e-04
Identities = 4/21 (19%), Positives = 10/21 (47%)
Query: 234 VEVIGGSDKYMAVCRECYKQK 254
+ ++G ++ Y CR +
Sbjct: 190 IILVGANESYEPRCRAHHIVA 210
>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation,
transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A*
2wvj_A* 2j87_A*
Length = 195
Score = 184 bits (468), Expect = 2e-57
Identities = 94/198 (47%), Positives = 117/198 (59%), Gaps = 47/198 (23%)
Query: 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVE 212
+VILGPMFSGK+TEL+RR+RR+Q A Y+C++++YAKD RY THD+ + A+ A
Sbjct: 23 QVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYS-SSFCTHDRNTMEALPACL 81
Query: 213 LNKLIPHTKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAAL 272
L + + VIGIDEGQF
Sbjct: 82 LRDVAQEALGVAVIGIDEGQF--------------------------------------- 102
Query: 273 NVPPPPEFPDVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCM 332
FPD+V F E+MANAGK V+VAALDGTFQR F IL+L+PLAE V KLTAVCM
Sbjct: 103 -------FPDIVEFCEAMANAGKTVIVAALDGTFQRKPFGAILNLVPLAESVVKLTAVCM 155
Query: 333 SCFRDAAFTKRIGQEKEV 350
CFR+AA+TKR+G EKEV
Sbjct: 156 ECFREAAYTKRLGTEKEV 173
Score = 171 bits (436), Expect = 1e-52
Identities = 81/138 (58%), Positives = 102/138 (73%), Gaps = 1/138 (0%)
Query: 19 RRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIPHTKDIDVIGI 78
RR+RR+Q A Y+C++++YAKD RY THD+ + A+ A L + + VIGI
Sbjct: 39 RRVRRFQIAQYKCLVIKYAKDTRYS-SSFCTHDRNTMEALPACLLRDVAQEALGVAVIGI 97
Query: 79 DEGQFFPDVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCMSC 138
DEGQFFPD+V F E+MANAGK V+VAALDGTFQR F IL+L+PLAE V KLTAVCM C
Sbjct: 98 DEGQFFPDIVEFCEAMANAGKTVIVAALDGTFQRKPFGAILNLVPLAESVVKLTAVCMEC 157
Query: 139 FRDAAFTKRIGQEKEVIL 156
FR+AA+TKR+G EKEV +
Sbjct: 158 FREAAYTKRLGTEKEVEV 175
Score = 43.4 bits (103), Expect = 3e-05
Identities = 16/28 (57%), Positives = 21/28 (75%)
Query: 228 IDEGQFVEVIGGSDKYMAVCRECYKQKA 255
+ + VEVIGG+DKY +VCR CY +KA
Sbjct: 167 LGTEKEVEVIGGADKYHSVCRLCYFKKA 194
>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium,
protein STRU initiative, PSI, structural genomics, DNA
synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum}
SCOP: c.37.1.24 g.39.1.14
Length = 191
Score = 183 bits (467), Expect = 3e-57
Identities = 59/203 (29%), Positives = 91/203 (44%), Gaps = 48/203 (23%)
Query: 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVE 212
EVI+GPM+SGK+ ELIRRIRR + A + + + D+RY E V +H +K AV+
Sbjct: 11 EVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKEDVVSHMGEKEQAVAIKN 70
Query: 213 LNKLIPH-TKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAA 271
+++ + +D +VI IDE QF
Sbjct: 71 SREILKYFEEDTEVIAIDEVQF-------------------------------------- 92
Query: 272 LNVPPPPEFPD-VVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAV 330
F D +V +A +G+ V+ A LD F+ F I L+ +AE V+K+ A+
Sbjct: 93 --------FDDEIVEIVNKIAESGRRVICAGLDMDFRGKPFGPIPELMAIAEFVDKIQAI 144
Query: 331 CMSCFRDAAFTKRIGQEKEVRIE 353
C+ C A T+R+ K +
Sbjct: 145 CVVCGNPATRTQRLINGKPAFYD 167
Score = 166 bits (422), Expect = 1e-50
Identities = 47/139 (33%), Positives = 75/139 (53%), Gaps = 2/139 (1%)
Query: 19 RRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIPH-TKDIDVIG 77
RRIRR + A + + + D+RY E V +H +K AV+ +++ + +D +VI
Sbjct: 27 RRIRRAKIAKQKIQVFKPEIDNRYSKEDVVSHMGEKEQAVAIKNSREILKYFEEDTEVIA 86
Query: 78 IDEGQFFPD-VVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCM 136
IDE QFF D +V +A +G+ V+ A LD F+ F I L+ +AE V+K+ A+C+
Sbjct: 87 IDEVQFFDDEIVEIVNKIAESGRRVICAGLDMDFRGKPFGPIPELMAIAEFVDKIQAICV 146
Query: 137 SCFRDAAFTKRIGQEKEVI 155
C A T+R+ K
Sbjct: 147 VCGNPATRTQRLINGKPAF 165
Score = 39.5 bits (93), Expect = 6e-04
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 234 VEVIGGSDKYMAVCRECY 251
V +IG + Y A CR+C+
Sbjct: 170 VVLIGAMESYEARCRKCH 187
>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding,
deoxyribonucleoside kinase, DNA synthesis, phosphate
accept nucleotide-binding; HET: THM; 2.7A {Bacillus
anthracis} PDB: 2ja1_A*
Length = 214
Score = 181 bits (462), Expect = 2e-56
Identities = 63/202 (31%), Positives = 91/202 (45%), Gaps = 46/202 (22%)
Query: 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVE 212
EVI G MFSGK+ ELIRR+RR Q+A ++ + D+RY E V +H+ K+ AV
Sbjct: 31 EVICGSMFSGKSEELIRRVRRTQFAKQHAIVFKPCIDNRYSEEDVVSHNGLKVKAVPVSA 90
Query: 213 LNKLIPH-TKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAA 271
+ H T+++DVI IDE QF F
Sbjct: 91 SKDIFKHITEEMDVIAIDEVQF----------------------------FD-------- 114
Query: 272 LNVPPPPEFPDVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVC 331
D+V + +AN G V+VA LD F+ F + L+ +AE V KL AVC
Sbjct: 115 ---------GDIVEVVQVLANRGYRVIVAGLDQDFRGLPFGQVPQLMAIAEHVTKLQAVC 165
Query: 332 MSCFRDAAFTKRIGQEKEVRIE 353
+C A+ T+R+ + +
Sbjct: 166 SACGSPASRTQRLIDGEPAAFD 187
Score = 163 bits (416), Expect = 2e-49
Identities = 51/139 (36%), Positives = 77/139 (55%), Gaps = 2/139 (1%)
Query: 19 RRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIPH-TKDIDVIG 77
RR+RR Q+A ++ + D+RY E V +H+ K+ AV + H T+++DVI
Sbjct: 47 RRVRRTQFAKQHAIVFKPCIDNRYSEEDVVSHNGLKVKAVPVSASKDIFKHITEEMDVIA 106
Query: 78 IDEGQFFP-DVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCM 136
IDE QFF D+V + +AN G V+VA LD F+ F + L+ +AE V KL AVC
Sbjct: 107 IDEVQFFDGDIVEVVQVLANRGYRVIVAGLDQDFRGLPFGQVPQLMAIAEHVTKLQAVCS 166
Query: 137 SCFRDAAFTKRIGQEKEVI 155
+C A+ T+R+ +
Sbjct: 167 ACGSPASRTQRLIDGEPAA 185
Score = 41.1 bits (97), Expect = 2e-04
Identities = 6/21 (28%), Positives = 11/21 (52%)
Query: 234 VEVIGGSDKYMAVCRECYKQK 254
+ ++G S+ Y CR C+
Sbjct: 190 IILVGASESYEPRCRHCHAVP 210
>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'-
(2'deoxythymidil))tetraphosphate, transferase; HET: 4TA;
2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14
Length = 234
Score = 178 bits (454), Expect = 8e-55
Identities = 94/198 (47%), Positives = 117/198 (59%), Gaps = 47/198 (23%)
Query: 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVE 212
+VILGPMFSGK+TEL+RR+RR+Q A Y+C++++YAKD RY THD+ + A+ A
Sbjct: 22 QVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYS-SSFCTHDRNTMEALPACL 80
Query: 213 LNKLIPHTKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAAL 272
L + + VIGIDEGQF
Sbjct: 81 LRDVAQEALGVAVIGIDEGQF--------------------------------------- 101
Query: 273 NVPPPPEFPDVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCM 332
FPD+V F E+MANAGK V+VAALDGTFQR F IL+L+PLAE V KLTAVCM
Sbjct: 102 -------FPDIVEFCEAMANAGKTVIVAALDGTFQRKPFGAILNLVPLAESVVKLTAVCM 154
Query: 333 SCFRDAAFTKRIGQEKEV 350
CFR+AA+TKR+G EKEV
Sbjct: 155 ECFREAAYTKRLGTEKEV 172
Score = 166 bits (422), Expect = 4e-50
Identities = 81/138 (58%), Positives = 102/138 (73%), Gaps = 1/138 (0%)
Query: 19 RRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIPHTKDIDVIGI 78
RR+RR+Q A Y+C++++YAKD RY THD+ + A+ A L + + VIGI
Sbjct: 38 RRVRRFQIAQYKCLVIKYAKDTRYS-SSFCTHDRNTMEALPACLLRDVAQEALGVAVIGI 96
Query: 79 DEGQFFPDVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCMSC 138
DEGQFFPD+V F E+MANAGK V+VAALDGTFQR F IL+L+PLAE V KLTAVCM C
Sbjct: 97 DEGQFFPDIVEFCEAMANAGKTVIVAALDGTFQRKPFGAILNLVPLAESVVKLTAVCMEC 156
Query: 139 FRDAAFTKRIGQEKEVIL 156
FR+AA+TKR+G EKEV +
Sbjct: 157 FREAAYTKRLGTEKEVEV 174
>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A
{Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*
Length = 184
Score = 175 bits (447), Expect = 2e-54
Identities = 45/200 (22%), Positives = 73/200 (36%), Gaps = 47/200 (23%)
Query: 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVE 212
VI GPM+SGKTTEL+ + Y+ + + + D RY + + +H + A
Sbjct: 6 TVITGPMYSGKTTELLSFVEIYKLGKKKVAVFKPKIDSRYHSTMIVSHSGNGVEAHVIER 65
Query: 213 LNKLIPH-TKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAA 271
++ + +D + IDE QF F
Sbjct: 66 PEEMRKYIEEDTRGVFIDEVQF----------------------------FN-------- 89
Query: 272 LNVPPPPEFPDVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVC 331
P + + + + G V A LD T ++ F L+ LA+ V K AVC
Sbjct: 90 ---------PSLFEVVKDLLDRGIDVFCAGLDLTHKQNPFETTALLLSLADTVIKKKAVC 140
Query: 332 MSCFR-DAAFTKRIGQEKEV 350
C +A T ++ +E
Sbjct: 141 HRCGEYNATLTLKVAGGEEE 160
Score = 168 bits (427), Expect = 3e-51
Identities = 34/142 (23%), Positives = 60/142 (42%), Gaps = 3/142 (2%)
Query: 18 CRRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIPH-TKDIDVI 76
+ Y+ + + + D RY + + +H + A ++ + +D +
Sbjct: 21 LSFVEIYKLGKKKVAVFKPKIDSRYHSTMIVSHSGNGVEAHVIERPEEMRKYIEEDTRGV 80
Query: 77 GIDEGQFF-PDVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVC 135
IDE QFF P + + + + G V A LD T ++ F L+ LA+ V K AVC
Sbjct: 81 FIDEVQFFNPSLFEVVKDLLDRGIDVFCAGLDLTHKQNPFETTALLLSLADTVIKKKAVC 140
Query: 136 MSCFR-DAAFTKRIGQEKEVIL 156
C +A T ++ +E I
Sbjct: 141 HRCGEYNATLTLKVAGGEEEID 162
Score = 41.8 bits (99), Expect = 8e-05
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 228 IDEGQFVEVIGGSDKYMAVCRECYKQK 254
+ G+ +GG +KY+AVCR+CY
Sbjct: 154 VAGGEEEIDVGGQEKYIAVCRDCYNTL 180
>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain,
TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma
parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*
Length = 223
Score = 176 bits (449), Expect = 4e-54
Identities = 51/208 (24%), Positives = 79/208 (37%), Gaps = 54/208 (25%)
Query: 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVE 212
E I GPMF+GKT ELIRR+ R +YA+ + ++ + D R + + L +V
Sbjct: 15 EFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSI-RNIQSRTGTSLPSVEVES 73
Query: 213 LNKLIPH------TKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLA 266
+++ + + VIGIDE QF
Sbjct: 74 APEILNYIMSNSFNDETKVIGIDEVQF--------------------------------- 100
Query: 267 NENAALNVPPPPEFPD-VVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVE 325
F D + A +A G +V+++ LD F+ F I L A+ +
Sbjct: 101 -------------FDDRICEVANILAENGFVVIISGLDKNFKGEPFGPIAKLFTYADKIT 147
Query: 326 KLTAVCMSCFRDAAFTKRIGQEKEVRIE 353
KLTA+C C +A + R K
Sbjct: 148 KLTAICNECGAEATHSLRKIDGKHADYN 175
Score = 160 bits (408), Expect = 5e-48
Identities = 39/144 (27%), Positives = 66/144 (45%), Gaps = 8/144 (5%)
Query: 19 RRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIPH------TKD 72
RR+ R +YA+ + ++ + D R + + L +V +++ + +
Sbjct: 31 RRLHRLEYADVKYLVFKPKIDTRSI-RNIQSRTGTSLPSVEVESAPEILNYIMSNSFNDE 89
Query: 73 IDVIGIDEGQFFPD-VVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKL 131
VIGIDE QFF D + A +A G +V+++ LD F+ F I L A+ + KL
Sbjct: 90 TKVIGIDEVQFFDDRICEVANILAENGFVVIISGLDKNFKGEPFGPIAKLFTYADKITKL 149
Query: 132 TAVCMSCFRDAAFTKRIGQEKEVI 155
TA+C C +A + R K
Sbjct: 150 TAICNECGAEATHSLRKIDGKHAD 173
Score = 40.7 bits (96), Expect = 3e-04
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 234 VEVIGGSDKYMAVCRECYKQK 254
+ IG + Y AVCR +K
Sbjct: 178 IVKIGCQEFYSAVCRHHHKVP 198
>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 = 57.8 bits (139), Expect = 3e-09
Identities = 50/268 (18%), Positives = 78/268 (29%), Gaps = 103/268 (38%)
Query: 9 RINP--YIVHFC----RRIRRYQYANYRCMIVRYAKDDRYDTEKV--------------- 47
NP +HF +RIR NY MI D + TEK+
Sbjct: 1666 INNPVNLTIHFGGEKGKRIR----ENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRS 1721
Query: 48 ------ATHDQQ---KLTAVSAVELNKLIPHTKDIDVIGIDEGQFFPDVVSFA-----E- 92
AT Q L +A E K +G P +FA E
Sbjct: 1722 EKGLLSATQFTQPALTLMEKAAFEDLK-------------SKG-LIPADATFAGHSLGEY 1767
Query: 93 S--MANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCMSCFRDAA-----FT 145
+ + A + + + ++ F R G + + V + + S + A
Sbjct: 1768 AALASLADVMSIESLVEVVFYR-G-------MTMQVAVPR-DELGRSNYGMIAINPGRVA 1818
Query: 146 KRIGQEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQ-- 203
QE + +T L+ + NY +QQ
Sbjct: 1819 ASFSQEALQYVVERVGKRTGWLV------EIVNYNV------------------ENQQYV 1854
Query: 204 ---KLTAVSAVE--LNKLIPHTKDIDVI 226
L A+ V LN + + ID+I
Sbjct: 1855 AAGDLRALDTVTNVLNFI--KLQKIDII 1880
Score = 40.8 bits (95), Expect = 6e-04
Identities = 51/317 (16%), Positives = 88/317 (27%), Gaps = 120/317 (37%)
Query: 40 DRYDTEKVATHDQQKLTAVSAVELNKLIPHTKDIDVI---GIDEGQF------FPDV--- 87
D Y T V D L SA L++LI T D + + G++ ++ PD
Sbjct: 175 DLYQTYHVLVGD---LIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYL 231
Query: 88 ----VSF----AESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKL-TAVCMSC 138
+S +A+ VV A L G F L + L TAV ++
Sbjct: 232 LSIPISCPLIGVIQLAH---YVVTAKLLG-FTPGELRSYLK--GATGHSQGLVTAVAIAE 285
Query: 139 ------FRDAAFTKRIGQEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRY 192
F + + +F + RC
Sbjct: 286 TDSWESFFVSVRK---------AITVLF---------------FIGVRC----------- 310
Query: 193 DTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYK 252
+ +++ + L +D ++ + G M +
Sbjct: 311 ----------YEAYPNTSLPPSIL----EDS----LENNE------GVPSPMLSISNLTQ 346
Query: 253 QKAPIKRSPFKTLANENAALNVPPPPEFPDVVSFAESMANAGKIVVVAALDGTFQRTGFN 312
++ + N+ L P +S + N K +VV +G
Sbjct: 347 EQV------QDYVNKTNSHL----PAGKQVEIS----LVNGAKNLVV---------SGP- 382
Query: 313 DILSLIPLAECVEKLTA 329
SL L + K A
Sbjct: 383 -PQSLYGLNLTLRKAKA 398
Score = 35.8 bits (82), Expect = 0.021
Identities = 39/212 (18%), Positives = 60/212 (28%), Gaps = 77/212 (36%)
Query: 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKD--DRYDTEKVSTHDQQKLTA 207
QE+ G M G +L Y + A+D +R D H +
Sbjct: 1627 QEQ----G-M--GM--DL--------YKTSK-----AAQDVWNRADN-----HFKDTY-G 1658
Query: 208 VSAVELNKLIPHTKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFK---- 263
S +++ P I G +G+ + + Y A+ E FK
Sbjct: 1659 FSILDIVINNPVNLTIHFGGE-KGKRIR-----ENYSAMIFETIVDGKLKTEKIFKEINE 1712
Query: 264 -----TLANENAALNVPPPPEF--P--DVVSFA--ESMANAGKIVVVAALDGTFQRTGFN 312
T +E L+ +F P ++ A E + + G I A G
Sbjct: 1713 HSTSYTFRSEKGLLSA---TQFTQPALTLMEKAAFEDLKSKGLIPADATFAG-------- 1761
Query: 313 DILSLIPLAECVEKLTA-VC----MSCFRDAA 339
S L E A MS
Sbjct: 1762 --HS---LGE----YAALASLADVMS-IESLV 1783
Score = 34.3 bits (78), Expect = 0.067
Identities = 46/270 (17%), Positives = 78/270 (28%), Gaps = 103/270 (38%)
Query: 38 KDDRYDTEKVATH-------DQQKLTAVSAVELNKLIPHTKDIDVIGIDEGQFFPDVVSF 90
+D + E V + Q+++ + N +P K +++
Sbjct: 325 EDSLENNEGVPSPMLSISNLTQEQVQDYVN-KTNSHLPAGKQVEI--------------- 368
Query: 91 AESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCMSCFRDAAFTKRI-- 148
S+ N K +VV +G SL L + K A RI
Sbjct: 369 --SLVNGAKNLVV---------SGP--PQSLYGLNLTLRKAKA------PSGLDQSRIPF 409
Query: 149 GQEKEV-------ILGPMFS---GKTTELIRRIRRYQYANYRCMIVRYAKDDR---YDTE 195
+ K + P S ++LI + ++ AKD + YDT
Sbjct: 410 SERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFN------AKDIQIPVYDTF 463
Query: 196 KVSTHDQQKLTAVSAVELNKLI-------------PHTKDID-----VIGID-------E 230
D + L+ + + I T +D G+ +
Sbjct: 464 --DGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKD 521
Query: 231 GQFVEVI-GGS------DKYMAVCRECYKQ 253
G V VI G+ D Y +KQ
Sbjct: 522 GTGVRVIVAGTLDINPDDDY------GFKQ 545
>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 = 56.4 bits (135), Expect = 8e-09
Identities = 55/375 (14%), Positives = 108/375 (28%), Gaps = 127/375 (33%)
Query: 28 NYRCMIVRYAKDDR--------YDTEKVATH-DQQKLTA--VSAVE--------LNKLIP 68
NY+ ++ + R Y ++ + D Q VS ++ L +L P
Sbjct: 90 NYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRP 149
Query: 69 HTKDIDVIGIDEGQFFPDVVSFAESMANAGKIVVVA--ALDGTFQRTGFNDILSLIPLAE 126
K++ + G + +GK V L Q + + + L
Sbjct: 150 A-KNVLIDG----------------VLGSGKTWVALDVCLSYKVQCK-MDFKIFWLNLKN 191
Query: 127 C------VEKLTAVCMSCFRDAAFTKRIGQEKEVILGPMFSGKTTELIRRIRRY-QYANY 179
C +E L + D +T R + L + + +RR + Y
Sbjct: 192 CNSPETVLEMLQKLLYQI--DPNWTSRSDHSSNIKL------RIHSIQAELRRLLKSKPY 243
Query: 180 -RCMIVRYAKDDRYDTE---------K--VSTHDQQKLTAVSAVELNKLIPHTKDIDVIG 227
C++V + + + K ++T +Q +SA T I +
Sbjct: 244 ENCLLVL---LNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAA-------TTTHISLDH 293
Query: 228 IDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPP---PPE----F 280
D+ ++ + L+ P P E
Sbjct: 294 HSMT-LTP-----DEVKSLLLKY---------------------LDCRPQDLPREVLTTN 326
Query: 281 PDVVS-FAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCM-SCFRD- 337
P +S AES+ + +A D ++ + + ++I + L F
Sbjct: 327 PRRLSIIAESIRDG-----LATWD-NWKHVNCDKLTTII--ESSLNVLEPAEYRKMFDRL 378
Query: 338 AAFTKRIGQEKEVRI 352
+ F I
Sbjct: 379 SVF------PPSAHI 387
Score = 34.4 bits (78), Expect = 0.060
Identities = 31/267 (11%), Positives = 77/267 (28%), Gaps = 83/267 (31%)
Query: 2 SFIERDDRINPYIVHF---CRRIRRY-QYANY-RCMIVRYAKDDRYDTE---------K- 46
++ R D + + +RR + Y C++V + + + K
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL---LNVQNAKAWNAFNLSCKI 268
Query: 47 -VATHDQQKLTAVSA-----VELNKLI-----PHTKDI--DVIGIDEG-------QFFPD 86
+ T +Q +SA + L+ K + + P
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPR 328
Query: 87 VVS-FAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCM-SCFRD-AA 143
+S AES+ + +A D ++ + + ++I + L F +
Sbjct: 329 RLSIIAESIRDG-----LATWD-NWKHVNCDKLTTII--ESSLNVLEPAEYRKMFDRLSV 380
Query: 144 F---------------TKRIGQEKEVILGPMFSGKTTELIRRIRRYQYANY--------- 179
F I + V++ + K + + ++ + +
Sbjct: 381 FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLH--KYSLVEKQPKESTISIPSIYLELKVK 438
Query: 180 --------RCMIVRYAKDDRYDTEKVS 198
R ++ Y +D++ +
Sbjct: 439 LENEYALHRSIVDHYNIPKTFDSDDLI 465
>3u1k_A Polyribonucleotide nucleotidyltransferase 1, MITO; RNAse PH, KH
domain, exoribonuclease; HET: CIT; 2.13A {Homo sapiens}
Length = 630
Score = 28.6 bits (65), Expect = 3.5
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 80 EGQFFPDVVSFAESMANAGKI 100
QF P VV + + A AG+I
Sbjct: 53 PSQFMPLVVDYRQKAAAAGRI 73
>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P;
hydrolase, type IV secretion, conjugation; 2.35A
{Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A
Length = 392
Score = 28.4 bits (63), Expect = 3.7
Identities = 7/31 (22%), Positives = 12/31 (38%)
Query: 154 VILGPMFSGKTTELIRRIRRYQYANYRCMIV 184
IL +GK+ + R R +I+
Sbjct: 39 TILAKPGAGKSFTAKMLLLREYMQGSRVIII 69
>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial
GTPase, bacterial POL motility, POLE localisation,
alpha/beta protein; HET: GDP; 1.90A {Thermus
thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*
Length = 198
Score = 27.8 bits (62), Expect = 4.3
Identities = 14/36 (38%), Positives = 16/36 (44%), Gaps = 4/36 (11%)
Query: 136 MSCFRDAAFTKRIGQEKEVILGPMFSGKTTELIRRI 171
MS F R K V GP SGKTT ++ I
Sbjct: 3 MSTIN---FANREINFKIVYYGPGLSGKTT-NLKWI 34
>2k5p_A THis protein, thiamine-biosynthesis protein; NESG, GMR137,
structural genomics, PSI-2, protein structure
initiative; NMR {Geobacter metallireducens gs-15} PDB:
3cwi_A
Length = 78
Score = 25.8 bits (57), Expect = 5.8
Identities = 10/35 (28%), Positives = 15/35 (42%), Gaps = 4/35 (11%)
Query: 210 AVELNKLIPHTKDIDVIGIDEGQFVEVI----GGS 240
VELN + + D + +G VE + GG
Sbjct: 36 TVELNGEVLEREAFDATTVKDGDAVEFLYFMGGGK 70
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
0.323 0.137 0.402
Gapped
Lambda K H
0.267 0.0563 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,598,798
Number of extensions: 353922
Number of successful extensions: 1019
Number of sequences better than 10.0: 1
Number of HSP's gapped: 990
Number of HSP's successfully gapped: 45
Length of query: 353
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 258
Effective length of database: 4,049,298
Effective search space: 1044718884
Effective search space used: 1044718884
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 58 (26.5 bits)