RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2410
(198 letters)
>2g8o_A TS, tsase, thymidylate synthase; methyltransferase, DUMP,
antifolate, high-resolution, ternar complex, beta sheet,
alpha/beta protein; HET: CXM UMP CB3; 1.30A {Escherichia
coli} SCOP: d.117.1.1 PDB: 1aob_A* 1f4c_A* 1f4e_A*
1f4f_A* 1jtq_A* 1jtu_A* 1jut_A* 1kce_A* 1kzi_A* 1tls_A*
1tsn_A* 1f4b_A* 2bbq_A* 2ftq_A* 2a9w_A* 2kce_A* 3b9h_A*
3bhl_A* 3bhr_A* 3tms_A ...
Length = 264
Score = 154 bits (391), Expect = 5e-47
Identities = 54/91 (59%), Positives = 66/91 (72%)
Query: 108 LPFNIASYSLLIHIIAHETGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
LPFNIASY+LL+H++A + L+VGDF+WTGGD HLY NH+DQ QL R P LP L I
Sbjct: 174 LPFNIASYALLVHMMAQQCDLEVGDFVWTGGDTHLYSNHMDQTHLQLSREPRPLPKLIIK 233
Query: 168 CKPKSSLDYNFEDFQINSYNPQKSIYAPIAI 198
KP+S DY FEDF+I Y+P I AP+AI
Sbjct: 234 RKPESIFDYRFEDFEIEGYDPHPGIKAPVAI 264
>3ed7_A Tsase, TS, thymidylate synthase; transferase, methyltransferase,
nucleotide biosynthesis; 1.56A {Homo sapiens} PDB:
3ebu_A* 1hvy_A* 1ypv_A* 1hw3_A* 2onb_A* 3eaw_X* 3gg5_A
3gh0_A 3ef9_A 3edw_X 3ejl_A* 3gh2_X* 2rd8_A* 2rda_A
3h9k_A* 3hb8_A* 3ob7_A* 1ju6_A* 1juj_A* 3egy_X* ...
Length = 295
Score = 153 bits (390), Expect = 2e-46
Identities = 48/91 (52%), Positives = 61/91 (67%)
Query: 108 LPFNIASYSLLIHIIAHETGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
+PFNIASY+LL ++IAH TGLK GDFI T GD H+YLNH++ + QL R P P L IL
Sbjct: 205 VPFNIASYALLTYMIAHITGLKPGDFIHTLGDAHIYLNHIEPLKIQLQREPRPFPKLRIL 264
Query: 168 CKPKSSLDYNFEDFQINSYNPQKSIYAPIAI 198
K + D+ EDFQI YNP +I +A+
Sbjct: 265 RKVEKIDDFKAEDFQIEGYNPHPTIKMEMAV 295
>3ix6_A TS, tsase, thymidylate synthase; niaid, ssgcid, seattle structural
center for infectious DISE brucellosis, orchitis,
epididymitis, mastitis; 2.20A {Brucella melitensis}
Length = 360
Score = 155 bits (394), Expect = 2e-46
Identities = 46/91 (50%), Positives = 59/91 (64%)
Query: 108 LPFNIASYSLLIHIIAHETGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
+PFNIASY+LL +IA TGLK G+FI T GD H+Y NH +QAR QL R P LP + I
Sbjct: 270 VPFNIASYALLTMMIAQVTGLKPGEFIHTLGDAHIYSNHFEQARLQLTRTPKKLPVMHIN 329
Query: 168 CKPKSSLDYNFEDFQINSYNPQKSIYAPIAI 198
K + FEDF+++ Y +I APIA+
Sbjct: 330 PDVKDLFAFRFEDFRLDGYEADPTIKAPIAV 360
>1hw4_A TS, thymidylate synthase; methyltransferase, transferase; HET: CME;
2.06A {Homo sapiens} SCOP: d.117.1.1 PDB: 3n5e_A 3n5g_A*
Length = 355
Score = 154 bits (391), Expect = 4e-46
Identities = 48/91 (52%), Positives = 61/91 (67%)
Query: 108 LPFNIASYSLLIHIIAHETGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
+PFNIASY+LL ++IAH TGLK GDFI T GD H+YLNH++ + QL R P P L IL
Sbjct: 265 VPFNIASYALLTYMIAHITGLKPGDFIHTLGDAHIYLNHIEPLKIQLQREPRPFPKLRIL 324
Query: 168 CKPKSSLDYNFEDFQINSYNPQKSIYAPIAI 198
K + D+ EDFQI YNP +I +A+
Sbjct: 325 RKVEKIDDFKAEDFQIEGYNPHPTIKMEMAV 355
>1f28_A Thymidylate synthase; beta-sheet, protein-inhibitor complex,
transferase; HET: UMP F89; 1.90A {Pneumocystis carinii}
SCOP: d.117.1.1 PDB: 1ci7_A*
Length = 297
Score = 152 bits (386), Expect = 5e-46
Identities = 37/91 (40%), Positives = 57/91 (62%)
Query: 108 LPFNIASYSLLIHIIAHETGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
+PFNIASY+LL +IAH L GDFI GDCH+Y +H++ ++QL R+P P L++
Sbjct: 207 VPFNIASYALLTCMIAHVCDLDPGDFIHVMGDCHIYKDHIEALQQQLTRSPRPFPTLSLN 266
Query: 168 CKPKSSLDYNFEDFQINSYNPQKSIYAPIAI 198
D+ +DF I +Y+P ++I ++I
Sbjct: 267 RSITDIEDFTLDDFNIQNYHPYETIKMKMSI 297
>1j3k_C Bifunctional dihydrofolate reductase-thymidylate synthase;
oxidoreductase, transferase; HET: WRA NDP UMP; 2.10A
{Plasmodium falciparum} SCOP: d.117.1.1 PDB: 1j3i_C*
1j3j_C* 3dg8_C* 3dga_C*
Length = 328
Score = 152 bits (387), Expect = 8e-46
Identities = 34/90 (37%), Positives = 48/90 (53%)
Query: 108 LPFNIASYSLLIHIIAHETGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
+PFNIASYS+ H+IA L+ FI G+ H+Y NH+D + QL R P P L +
Sbjct: 238 VPFNIASYSIFTHMIAQVCNLQPAQFIHVLGNAHVYNNHIDSLKIQLNRIPYPFPTLKLN 297
Query: 168 CKPKSSLDYNFEDFQINSYNPQKSIYAPIA 197
K+ D+ DF I +Y + I +A
Sbjct: 298 PDIKNIEDFTISDFTIQNYVHHEKISMDMA 327
>1bkp_A Thymidylate synthase A; methyltransferase, DTMP synthase; 1.70A
{Bacillus subtilis} SCOP: d.117.1.1 PDB: 1bko_A 1bsf_A
1bsp_A 1b02_A*
Length = 278
Score = 150 bits (381), Expect = 2e-45
Identities = 29/91 (31%), Positives = 51/91 (56%)
Query: 108 LPFNIASYSLLIHIIAHETGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
PFN+ Y++L +IA TG ++G++I+ GDCH+Y H+D + Q+ R P L I
Sbjct: 188 NPFNVFQYNVLQRMIAQVTGYELGEYIFNIGDCHVYTRHIDNLKIQMEREQFEAPELWIN 247
Query: 168 CKPKSSLDYNFEDFQINSYNPQKSIYAPIAI 198
+ K D+ +DF++ +Y + +A+
Sbjct: 248 PEVKDFYDFTIDDFKLINYKHGDKLLFEVAV 278
>3ik0_A TS, tsase, thymidylate synthase; transferase, nucleotide synthase,
methyltransferase, nucleot biosynthesis; HET: 7C1 UMP;
2.10A {Lactobacillus casei} PDB: 1lcb_A* 1lce_A* 1lca_A*
1thy_A* 1tsl_A* 1tsm_A* 2tdm_A* 3bnz_A* 3byx_A* 3bz0_A*
3c06_A* 3c0a_A* 1nje_A* 3ijz_A* 3ik1_A* 4tms_A 1tsy_A*
1tsz_A 1tdb_A* 1tda_A* ...
Length = 316
Score = 150 bits (381), Expect = 5e-45
Identities = 44/91 (48%), Positives = 64/91 (70%)
Query: 108 LPFNIASYSLLIHIIAHETGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
+PFNIASY+LL H++AHE GL+VG+FI T GD HLY+NHLDQ ++QL R P P L +
Sbjct: 226 VPFNIASYALLTHLVAHECGLEVGEFIHTFGDAHLYVNHLDQIKEQLSRTPRPAPTLQLN 285
Query: 168 CKPKSSLDYNFEDFQINSYNPQKSIYAPIAI 198
D++ +D ++ +Y+P +I AP+A+
Sbjct: 286 PDKHDIFDFDMKDIKLLNYDPYPAIKAPVAV 316
>3qj7_A TS, tsase, thymidylate synthase; thymidilate synthase, structural
genomics, TB structural GEN consortium, TBSGC,
transferase; HET: UMP SPM; 2.50A {Mycobacterium
tuberculosis}
Length = 264
Score = 148 bits (377), Expect = 6e-45
Identities = 45/91 (49%), Positives = 63/91 (69%), Gaps = 1/91 (1%)
Query: 108 LPFNIASYSLLIHIIAHETGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
+PFNIASY+LL H++A + GL VG+FIWTGGDCH+Y NH++Q R QL R P P L +
Sbjct: 175 VPFNIASYALLTHMMAAQAGLSVGEFIWTGGDCHIYDNHVEQVRLQLSREPRPYPKLLLA 234
Query: 168 CKPKSSLDYNFEDFQINSYNPQKSIYAPIAI 198
S +Y +ED + +Y+P +I AP+A+
Sbjct: 235 -DRDSIFEYTYEDIVVKNYDPHPAIKAPVAV 264
>2aaz_A TS, tsase, thymidylate synthase; methyl transferase, nucleotide
biosynthesis, transferase; HET: UMP CB3; 2.08A
{Filobasidiella neoformans}
Length = 317
Score = 148 bits (376), Expect = 3e-44
Identities = 32/93 (34%), Positives = 46/93 (49%), Gaps = 3/93 (3%)
Query: 108 LPFNIASYSLLIHIIAHETGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
+PFNIASY+LL H+IA T + +FI GD H+Y +H++ + QL R P P L
Sbjct: 224 VPFNIASYALLTHMIALITDTEPHEFILQMGDAHVYRDHVEPLKTQLEREPRDFPKLKWA 283
Query: 168 CKP---KSSLDYNFEDFQINSYNPQKSIYAPIA 197
+ EDF + Y P I ++
Sbjct: 284 RSKEEIGDIDGFKVEDFVVEGYKPWGKIDMKMS 316
>3kgb_A Thymidylate synthase 1/2; ssgcid, NIH, niaid, SBRI, UW, decode,
methyltransferase, nucleotide biosynt transferase,
structural genomics; 2.20A {Encephalitozoon cuniculi}
Length = 294
Score = 147 bits (374), Expect = 4e-44
Identities = 37/92 (40%), Positives = 58/92 (63%), Gaps = 2/92 (2%)
Query: 108 LPFNIASYSLLIHIIAHETGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
+PFNIASYSLL ++AH TGL+ G+F+ GD H+YL+H+D R+Q+ R P + P L +
Sbjct: 202 VPFNIASYSLLTILVAHLTGLQPGEFVHFLGDAHVYLDHVDSLRQQIQRPPRAFPKLFVS 261
Query: 168 CKP--KSSLDYNFEDFQINSYNPQKSIYAPIA 197
K + +EDF++ Y+P +I ++
Sbjct: 262 PKGPRTEPEHFQYEDFELVGYDPHPAIKMNMS 293
>4dq1_A TS, tsase, thymidylate synthase; structural genomics, PSI-biology,
midwest center for structu genomics, MCSG; HET: UMP;
2.71A {Staphylococcus aureus}
Length = 321
Score = 147 bits (372), Expect = 1e-43
Identities = 44/92 (47%), Positives = 59/92 (64%), Gaps = 3/92 (3%)
Query: 108 LPFNIASYSLLIHIIAHETGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
+PFNIASY+LL H+IA E GL+VG+F+ T GD H+Y NH+D + QL R + P L I
Sbjct: 232 VPFNIASYALLTHLIAKECGLEVGEFVHTFGDAHIYSNHIDAIQTQLARESFNPPTLKI- 290
Query: 168 CKPKSSL-DYNFEDFQINSYNPQKSIYAPIAI 198
S+ D N+ED +I Y +I APIA+
Sbjct: 291 -NSDKSIFDINYEDLEIVDYESHPAIKAPIAV 321
>1tis_A Thymidylate synthase; transferase(methyltransferase); 2.70A
{Enterobacteria phage T4} SCOP: d.117.1.1
Length = 286
Score = 145 bits (369), Expect = 1e-43
Identities = 38/103 (36%), Positives = 55/103 (53%), Gaps = 12/103 (11%)
Query: 108 LPFNIASYSLLIHIIAHETGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
LPFNIASY+ L+HI+A L GD I++GG+ H+Y+NH++Q ++ L R P L L I
Sbjct: 184 LPFNIASYATLVHIVAKMCNLIPGDLIFSGGNTHIYMNHVEQCKEILRREPKELCELVIS 243
Query: 168 CKP------------KSSLDYNFEDFQINSYNPQKSIYAPIAI 198
P K L +DF +N+Y I +A+
Sbjct: 244 GLPYKFRYLSTKEQLKYVLKLRPKDFVLNNYVSHPPIKGKMAV 286
>3hj3_A Chain A, crystal structure of DHFR; TS, enzyme, crossover,
non-active site, oxidoreductase; HET: UMP CB3 MTX NDP;
2.70A {Cryptosporidium hominis} PDB: 1qzf_A* 1sej_A*
3dl5_A* 3dl6_A* 2oip_A*
Length = 521
Score = 151 bits (382), Expect = 2e-43
Identities = 33/91 (36%), Positives = 51/91 (56%)
Query: 108 LPFNIASYSLLIHIIAHETGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
PFNIASY++L ++A G + G+ GD H+Y NHL Q ++QL R P P L
Sbjct: 431 SPFNIASYAILTMMLAQVCGYEPGELAIFIGDAHIYENHLTQLKEQLSRTPRPFPQLKFK 490
Query: 168 CKPKSSLDYNFEDFQINSYNPQKSIYAPIAI 198
K ++ D+ +ED ++ Y P +I +A+
Sbjct: 491 RKVENIEDFKWEDIELIGYYPYPTIKMDMAV 521
>3qg2_A Bifunctional dihydrofolate reductase-thymidylate; pyrimethamine,
antifolate resistance, oxidoreductase, transferase; HET:
CP6 NDP UMP; 2.30A {Plasmodium falciparum} PDB: 3jsu_A*
3qgt_A*
Length = 608
Score = 151 bits (383), Expect = 3e-43
Identities = 34/90 (37%), Positives = 48/90 (53%)
Query: 108 LPFNIASYSLLIHIIAHETGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
+PFNIASYS+ H+IA L+ FI G+ H+Y NH+D + QL R P P L +
Sbjct: 518 VPFNIASYSIFTHMIAQVCNLQPAQFIHVLGNAHVYNNHIDSLKIQLNRIPYPFPTLKLN 577
Query: 168 CKPKSSLDYNFEDFQINSYNPQKSIYAPIA 197
K+ D+ DF I +Y + I +A
Sbjct: 578 PDIKNIEDFTISDFTIQNYVHHEKISMDMA 607
>3irm_A Bifunctional dihydrofolate reductase-thymidylate; DHFR-TS
antifolate complex, methyltransfe multifunctional
enzyme, NADP; HET: 1CY; 2.10A {Trypanosoma cruzi} PDB:
3inv_A* 3irn_A* 3iro_A* 2h2q_A* 3cl9_A* 3clb_A* 3hbb_A*
3kjs_A*
Length = 521
Score = 149 bits (377), Expect = 6e-43
Identities = 35/91 (38%), Positives = 52/91 (57%)
Query: 108 LPFNIASYSLLIHIIAHETGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
+PFNIASY+LL +IA TGL+ G+ + T GD H+Y NH++ +QL R P + P L
Sbjct: 431 VPFNIASYALLTILIAKATGLRPGELVHTLGDAHVYSNHVEPCNEQLKRVPRAFPYLVFR 490
Query: 168 CKPKSSLDYNFEDFQINSYNPQKSIYAPIAI 198
+ + DY D ++ Y P I +A+
Sbjct: 491 REREFLEDYEEGDMEVIDYAPYPPISMKMAV 521
>3nrr_A Dihydrofolate reductase-thymidylate synthase; structural genomics,
seattle structural genomics center for infectious
disease, ssgcid, niaid, DHFR; HET: NAP D16 UMP; 1.80A
{Babesia bovis} PDB: 3kjr_A* 3i3r_A* 3k2h_A*
Length = 515
Score = 148 bits (376), Expect = 9e-43
Identities = 28/90 (31%), Positives = 48/90 (53%)
Query: 108 LPFNIASYSLLIHIIAHETGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
+PFNIASYS+L ++A GL +G+F+ D H+Y++H+D Q+ R P P L +
Sbjct: 425 VPFNIASYSILTAMVAQVCGLGLGEFVHNLADAHIYVDHVDAVTTQIARIPHPFPRLRLN 484
Query: 168 CKPKSSLDYNFEDFQINSYNPQKSIYAPIA 197
++ D+ +D + Y I ++
Sbjct: 485 PDIRNIEDFTIDDIVVEDYVSHPPIPMAMS 514
>3v8h_A TS, tsase, thymidylate synthase; ssgcid, structural genomics,
seattle S genomics center for infectious disease,
transferase; HET: CIT; 1.65A {Burkholderia
thailandensis}
Length = 327
Score = 139 bits (351), Expect = 2e-40
Identities = 27/102 (26%), Positives = 43/102 (42%), Gaps = 11/102 (10%)
Query: 108 LPFNIASYSLLIHIIAHETGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
PFN+A + L+ ++ TG F + GD H+Y N LD ++QL R P P L +
Sbjct: 226 TPFNLAEGAALLTLVGRLTGYSPRWFTYFIGDAHIYENQLDMLKQQLEREPFESPRLELA 285
Query: 168 CKPKSSL-----------DYNFEDFQINSYNPQKSIYAPIAI 198
+ DF + Y + + AP+A+
Sbjct: 286 ERVPDYAKTGKYEPQWLERVEPSDFTLVGYRHHEPLSAPMAV 327
>1b5e_A Protein (deoxycytidylate hydroxymethylase); DNTP synthesizing
complex, transferase; HET: DCM; 1.60A {Enterobacteria
phage T4} SCOP: d.117.1.1 PDB: 1b49_A* 1b5d_A*
Length = 246
Score = 97.7 bits (244), Expect = 2e-25
Identities = 9/62 (14%), Positives = 16/62 (25%), Gaps = 7/62 (11%)
Query: 108 LPFNIASYSLLIHIIAHE-------TGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGS 160
+ A ++ + + K G IW G H+Y H
Sbjct: 176 FRNDYAWQKYVLDKLVSDLNAGDSTRQYKAGSIIWNVGSLHVYSRHFYLVDHWWKTGETH 235
Query: 161 LP 162
+
Sbjct: 236 IS 237
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 33.8 bits (76), Expect = 0.014
Identities = 10/32 (31%), Positives = 15/32 (46%), Gaps = 9/32 (28%)
Query: 149 QARKQL-----LRNPGSLPNLTILCKPKSSLD 175
QA K+L L S P L I K++++
Sbjct: 20 QALKKLQASLKLYADDSAPALAI----KATME 47
>3l4f_D SH3 and multiple ankyrin repeat domains protein 1; coiled-coil,
PDZ, guanine-nucleotide releasing factor,
phosphoprotein, SH3 domain; 2.80A {Rattus norvegicus}
Length = 132
Score = 31.1 bits (70), Expect = 0.091
Identities = 11/52 (21%), Positives = 23/52 (44%), Gaps = 5/52 (9%)
Query: 123 AHETGLKVGDFIWT--GGDCHLYLNHLDQARKQLLRNPGSLPNLTILCKPKS 172
A GL++GDF+ G + + H Q ++R G+ + ++ +
Sbjct: 78 AWRAGLRMGDFLIEVNGQNVV-KVGH-RQVV-NMIRQGGNTLMVKVVMVTRH 126
>1q3o_A Shank1; PDZ, GKAP, peptide binding protein; 1.80A {Rattus
norvegicus} SCOP: b.36.1.1 PDB: 1q3p_A 3qjm_A 3qjn_A
3o5n_A*
Length = 109
Score = 29.8 bits (67), Expect = 0.23
Identities = 11/47 (23%), Positives = 22/47 (46%), Gaps = 5/47 (10%)
Query: 123 AHETGLKVGDFIWT--GGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
A GL++GDF+ G + + H Q ++R G+ + ++
Sbjct: 58 AWRAGLRMGDFLIEVNGQNVV-KVGH-RQV-VNMIRQGGNTLMVKVV 101
>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 = 30.6 bits (68), Expect = 0.39
Identities = 15/66 (22%), Positives = 28/66 (42%), Gaps = 10/66 (15%)
Query: 134 IWTGG---DCHLYLNHLDQARKQLL-RNPG----SLPNLTILCKPKSSLDYNFEDFQINS 185
IW D + +N L + L+ + P S+P++ + K K +Y ++
Sbjct: 395 IWFDVIKSDVMVVVNKL--HKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDH 452
Query: 186 YNPQKS 191
YN K+
Sbjct: 453 YNIPKT 458
Score = 28.7 bits (63), Expect = 1.6
Identities = 32/222 (14%), Positives = 58/222 (26%), Gaps = 83/222 (37%)
Query: 54 ILAISEGAELLLSSSSILIFIKIFGIIWL----------MYTSFQMWCASINKKDSTYIC 103
+A ++ LS F I WL + Q I+ ++
Sbjct: 165 WVA----LDVCLSYKVQCKMD--FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD 218
Query: 104 ETIRLPFNIAS-------------Y--SLLI--------HIIAHETGLK---------VG 131
+ + I S Y LL+ A K V
Sbjct: 219 HSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVT 278
Query: 132 DFIWTGGDCHLYLNHL------DQARKQLLR----NPGSLPNLTILCKP----------- 170
DF+ H+ L+H D+ + LL+ P LP + P
Sbjct: 279 DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIR 338
Query: 171 ------KSSLDYNFEDFQ------INSYNP--QKSIYAPIAI 198
+ N + +N P + ++ +++
Sbjct: 339 DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV 380
>2dls_A PDZ-rhogef, RHO guanine nucleotide exchange factor 11; PDZ domain,
arhgef11, KIAA0380, structural genomics, NPPSFA; NMR
{Homo sapiens} PDB: 2omj_A 2os6_A
Length = 93
Score = 28.0 bits (63), Expect = 0.65
Identities = 14/50 (28%), Positives = 24/50 (48%), Gaps = 6/50 (12%)
Query: 123 AHETGLKVGDFIWT--GGDCHLYLNHLDQARKQLLRNPGSLPNLTILCKP 170
A + G+K GD I G +HL+ +L+++ G+ LT+L
Sbjct: 42 AMKAGVKEGDRIIKVNGTMVT-NSSHLEVV--KLIKS-GAYVALTLLGSS 87
>3khf_A Microtubule-associated serine/threonine-protein kinase 3; MAST3,
microtubule associated serine/threonine kinase 3, PDZ
domain, structural genomics; 1.20A {Homo sapiens} PDB:
2w7r_A 2kqf_A 2kyl_A 3ps4_A
Length = 99
Score = 28.1 bits (63), Expect = 0.66
Identities = 14/53 (26%), Positives = 19/53 (35%), Gaps = 5/53 (9%)
Query: 123 AHETGLKVGDFIWT--GGDCHLYLNHLDQARKQLLRNPGSLPNLTILCKPKSS 173
A E GL+ GD I G L H +LL G+ +L +
Sbjct: 47 AQEAGLRAGDLITHINGESVL-GLVH-MDVV-ELLLKSGNKISLRTTALENTE 96
>1w9e_A Syntenin 1; cell adhesion, adhesion/complex, PDZ domain,
scaffolding protein signaling protein; 1.56A {Homo
sapiens} SCOP: b.36.1.1 b.36.1.1 PDB: 1n99_A 1v1t_A
1obz_A 1w9o_A 1w9q_A 1ybo_A
Length = 166
Score = 29.0 bits (65), Expect = 0.71
Identities = 13/48 (27%), Positives = 20/48 (41%)
Query: 123 AHETGLKVGDFIWTGGDCHLYLNHLDQARKQLLRNPGSLPNLTILCKP 170
A GL+ GD + + D+A K L + G +TI +P
Sbjct: 40 ASLVGLRFGDQVLQINGENCAGWSSDKAHKVLKQAFGEKITMTIRDRP 87
>3qe1_A Sorting nexin-27, G protein-activated inward RECT potassium channel
3 chimera; PDZ domain, PDZ binding, GIRK3 regulation,
early endosomes; 1.68A {Rattus norvegicus} PDB: 3qdo_A
3qgl_A
Length = 107
Score = 28.1 bits (63), Expect = 0.75
Identities = 13/47 (27%), Positives = 18/47 (38%), Gaps = 5/47 (10%)
Query: 123 AHETGLKVGDFIWT--GGDCHLYLNHLDQARKQLLRNPGSLPNLTIL 167
A G++ GD I G + H Q L+R LT+L
Sbjct: 56 ADRAGVRKGDRILEVNGVNVE-GATH-KQVV-DLIRAGEKELILTVL 99
>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 = 29.6 bits (66), Expect = 0.83
Identities = 36/205 (17%), Positives = 58/205 (28%), Gaps = 75/205 (36%)
Query: 6 WISFLLFSIITSISPGPGNILT--INHALRYGWRKTLSLIIGQEI-ALVLIILAISEGAE 62
FL + + + + P +N L L G +I AL A+
Sbjct: 61 VGKFLGY-VSSLVEPSKVGQFDQVLNLCLTEFENCYLE---GNDIHALA---------AK 107
Query: 63 LLLSSSSILIFIKIFGIIWLMYTSFQMWCASINKKDSTYI--CETIRLPFNIASYSLLI- 119
LL + + L+ K +I YI + PF+ S S L
Sbjct: 108 LLQENDTTLV--KTKELI------------------KNYITARIMAKRPFDKKSNSALFR 147
Query: 120 -------HIIA-------HETGLK------------VGDFIWTGGDC--HLYLNHLDQAR 151
++A + + VGD I + L LD +
Sbjct: 148 AVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEK 207
Query: 152 --------KQLLRNPGSLPNLTILC 168
+ L NP + P+ L
Sbjct: 208 VFTQGLNILEWLENPSNTPDKDYLL 232
>3r68_A Na(+)/H(+) exchange regulatory cofactor NHE-RF3; PDZ domain,
adaptor protein, SR-BI, signaling protein; 1.30A {Mus
musculus} PDB: 3r69_A*
Length = 95
Score = 27.6 bits (62), Expect = 1.0
Identities = 14/50 (28%), Positives = 20/50 (40%), Gaps = 5/50 (10%)
Query: 123 AHETGLKVGDFIWT--GGDCHLYLNHLDQARKQLLRNPGSLPNLTILCKP 170
A GLK D + G L+H D +++R G L +L K
Sbjct: 42 AEAAGLKNNDLVVAVNGKSVE-ALDH-DGVV-EMIRKGGDQTTLLVLDKE 88
>2d90_A PDZ domain containing protein 1; structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Mus musculus}
Length = 102
Score = 27.3 bits (61), Expect = 1.2
Identities = 14/54 (25%), Positives = 21/54 (38%), Gaps = 5/54 (9%)
Query: 123 AHETGLKVGDFIWT--GGDCHLYLNHLDQARKQLLRNPGSLPNLTILCKPKSSL 174
A GLK D + G L+H +++R G L +L K S+
Sbjct: 43 AEAAGLKNNDLVVAVNGKSVE-ALDHDGVV--EMIRKGGDQTTLLVLDKEAESI 93
>2he4_A Na(+)/H(+) exchange regulatory cofactor NHE-RF2; phosphorylation,
structural genomics, structural genomics consortium,
SGC, unknown function; 1.45A {Homo sapiens} PDB: 2ozf_A
Length = 90
Score = 27.3 bits (61), Expect = 1.4
Identities = 10/54 (18%), Positives = 19/54 (35%), Gaps = 6/54 (11%)
Query: 123 AHETGLKVGDFIWT--GGDCHLYLNHLDQARKQLLRNPGSLPNLTILCKPKSSL 174
A +GL+ D + G + L H + ++ L + P + L
Sbjct: 41 AARSGLRAQDRLIEVNGQNVE-GLRHAEVV--ASIKAREDEARLLV-VGPSTRL 90
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 28.3 bits (63), Expect = 2.1
Identities = 22/102 (21%), Positives = 40/102 (39%), Gaps = 32/102 (31%)
Query: 44 IGQEIALVLIILAISEGAELLLSSSS----ILIFIKIFGIIWLMYTSFQMWCASINKKDS 99
IG E+ L+ GA++++++S + + + +Y + + K S
Sbjct: 489 IGAEVLQGLL----QGGAKVVVTTSRFSKQVTDYYQS------IYAKY----GA---KGS 531
Query: 100 TYICETIRLPFNIASY----SLLIHIIAHETGLKVG---DFI 134
T I +PFN S +L+ I E +G D I
Sbjct: 532 TLIV----VPFNQGSKQDVEALIEFIYDTEKNGGLGWDLDAI 569
>2vz5_A TAX1-binding protein 3; WNT signaling pathway, protein binding,
nucleus, cytoplasm, PDZ domain; 1.74A {Homo sapiens}
PDB: 3dj1_A 3diw_A 2l4s_A 2l4t_A 3gj9_A 2kg2_A 3dj3_A
Length = 139
Score = 26.9 bits (59), Expect = 2.7
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 4/46 (8%)
Query: 123 AHETGLKVGDFIWT--GGDCHLYLNHLDQARKQLLRNPGSLPNLTI 166
A GL++GD I G D + H DQARK+L + + L +
Sbjct: 77 AEIAGLQIGDKIMQVNGWDMT-MVTH-DQARKRLTKRSEEVVRLLV 120
>1uit_A Human discs large 5 protein; PDZ domain, HDLG5, maguk family,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo sapiens}
SCOP: b.36.1.1
Length = 117
Score = 26.7 bits (59), Expect = 3.0
Identities = 12/51 (23%), Positives = 19/51 (37%), Gaps = 3/51 (5%)
Query: 122 IAHETGLKVGDFIWTGGDCHL-YLNHLDQARKQLLRNPGSLPNLTILCKPK 171
IAH+ GL+ GD + +L QAR ++ + P
Sbjct: 54 IAHQAGLEYGDQLLEFNGINLRSATE-QQAR-LIIGQQCDTITILAQYNPH 102
>2z17_A Pleckstrin homology SEC7 and coiled-coil domains- binding protein;
PDZ domain, cytoplasm, membrane, polymorphism, protein
binding; 2.70A {Homo sapiens}
Length = 104
Score = 26.3 bits (58), Expect = 3.2
Identities = 12/51 (23%), Positives = 20/51 (39%), Gaps = 13/51 (25%)
Query: 123 AHETGLKVGDFIWTGGDCHLYLNHLDQARK------QLLRNPGSLPNLTIL 167
AH GL+ GD + +N + L+R+ G+L + L
Sbjct: 61 AHCAGLQAGDVL-------ANINGVSTEGFTYKQVVDLIRSSGNLLTIETL 104
>2ego_A General receptor for phosphoinositides 1- associated scaffold
protein; PDZ domain, ligand-free, protein binding; 1.80A
{Rattus norvegicus} PDB: 2egn_A 2egk_A 2pnt_A
Length = 96
Score = 26.2 bits (58), Expect = 3.4
Identities = 6/12 (50%), Positives = 6/12 (50%)
Query: 123 AHETGLKVGDFI 134
A GL GD I
Sbjct: 50 AQLAGLTPGDTI 61
>1x5n_A Harmonin; PDZ domain, usher syndrome 1C protein, autoimmune
enteropathy-related antigen AIE-75 ,antigen
NY-CO-38/NY-CO- 37, PDZ-73 protein; NMR {Homo sapiens}
SCOP: b.36.1.1 PDB: 2kbs_A
Length = 114
Score = 26.3 bits (58), Expect = 4.3
Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 10/37 (27%)
Query: 108 LPFNIAS---YSLLIHI-------IAHETGLKVGDFI 134
L +I+S I I ++ E GL++GD I
Sbjct: 29 LGCSISSGPIQKPGIFISHVKPGSLSAEVGLEIGDQI 65
>2w4f_A Protein LAP4; structural protein, phosphoprotein, UBL conjugation,
leucine-rich repeat, alternative splicing, cytoplasm,
circletail, coiled coil; 1.30A {Homo sapiens}
Length = 97
Score = 25.7 bits (57), Expect = 4.4
Identities = 12/59 (20%), Positives = 26/59 (44%), Gaps = 15/59 (25%)
Query: 123 AHETGLKVGDFIWTGGDCHLYLNHLD-------QARKQLLRNPGSLPNLTILCKPKSSL 174
A G++VGD + L +N + +A + LR G+ + + + ++S+
Sbjct: 47 AARAGVRVGDKL-------LEVNGVALQGAEHHEAV-EALRGAGTAVQMRVWRERETSV 97
>1nxc_A Mannosyl-oligosaccharide 1,2-alpha-mannosidase IA; glycosidase,
structural genomics, PSI, protein initiative; HET: NAG
BMA MAN; 1.51A {Mus musculus} SCOP: a.102.2.1
Length = 478
Score = 27.2 bits (60), Expect = 4.5
Identities = 9/90 (10%), Positives = 25/90 (27%), Gaps = 14/90 (15%)
Query: 75 KIFGIIWLMYTSFQMWCASINKKDSTYICETIRLPFNIASYSLLIHIIAHETGLKVGDFI 134
KI ++ + ++ +N + + + S+ +E LK ++
Sbjct: 200 KIRTVLNKLDKPEGLYPNYLNPSSGQWGQHHVSVGGLGDSF--------YEYLLKA--WL 249
Query: 135 WTGGDCHLYLN----HLDQARKQLLRNPGS 160
+ + L+R
Sbjct: 250 MSDKTDLEAKKMYFDAVQAIETHLIRKSSG 279
>1vq8_A 50S ribosomal protein L2P; ribosome 50S, protein-protein complex,
RNA-RNA complex, PROT complex, peptidyl transferase
reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A
{Haloarcula marismortui} SCOP: b.34.5.3 b.40.4.5 PDB:
1vq4_A* 1vq5_A* 1vq6_A* 1vq7_A* 1s72_A* 1vq9_A* 1vqk_A*
1vql_A* 1vqm_A* 1vqn_A* 1vqo_A* 1vqp_A* 1yhq_A* 1yi2_A*
1yij_A* 1yit_A* 1yj9_A* 1yjn_A* 1yjw_A* 2otj_A* ...
Length = 240
Score = 26.7 bits (60), Expect = 4.9
Identities = 9/35 (25%), Positives = 14/35 (40%), Gaps = 13/35 (37%)
Query: 111 NIASYSLLIH--------IIAHETGLKVGDFIWTG 137
+A + I+A E G+ VGD + G
Sbjct: 55 PVA----AVEFEDGDRRLILAPE-GVGVGDELQVG 84
>3jyw_B 60S ribosomal protein L2; eukaryotic ribosome, RACK1 protein,
flexible fitting; 8.90A {Thermomyces lanuginosus} PDB:
3izc_B 3izs_B 3o58_B 3o5h_B 3u5e_A 3u5i_A 1s1i_B
Length = 243
Score = 26.0 bits (58), Expect = 7.5
Identities = 8/18 (44%), Positives = 11/18 (61%), Gaps = 1/18 (5%)
Query: 120 HIIAHETGLKVGDFIWTG 137
IA+E G+ G FI+ G
Sbjct: 74 IFIANE-GVHTGQFIYAG 90
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
0.326 0.142 0.439
Gapped
Lambda K H
0.267 0.0686 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,951,654
Number of extensions: 163609
Number of successful extensions: 467
Number of sequences better than 10.0: 1
Number of HSP's gapped: 459
Number of HSP's successfully gapped: 51
Length of query: 198
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 109
Effective length of database: 4,216,824
Effective search space: 459633816
Effective search space used: 459633816
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.1 bits)