RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4747
(414 letters)
>2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive
transcription elongation factor, P-TEFB; 1.50A {Homo
sapiens} SCOP: a.74.1.1 a.74.1.1
Length = 258
Score = 283 bits (725), Expect = 1e-94
Identities = 176/249 (70%), Positives = 211/249 (84%), Gaps = 1/249 (0%)
Query: 39 TMPYWYFDKKDIRNSPSFREGIDYETEQRYRREGARFIIDCGTKMDLGYNTMATGVVFFH 98
T P WY+DKKD+ ++PS EG+D TE RYRREGARFI D GT++ L Y+T+ATG+++FH
Sbjct: 11 TKPCWYWDKKDLAHTPSQLEGLDPATEARYRREGARFIFDVGTRLGLHYDTLATGIIYFH 70
Query: 99 RFYMYHSFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTARMLVDDKKFKTFGDDPREE 158
RFYM+HSFK FPRYVT +CCLFLAGKVEETPKKCKD+IKTAR L++D +F FGDDP+EE
Sbjct: 71 RFYMFHSFKQFPRYVTGACCLFLAGKVEETPKKCKDIIKTARSLLNDVQFGQFGDDPKEE 130
Query: 159 VMTLERILLQTIKFDLQVDHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCL 218
VM LERILLQTIKFDLQV+HPY FLLKYAK LKGDK K++K++QMAWTFVNDSLCTTL L
Sbjct: 131 VMVLERILLQTIKFDLQVEHPYQFLLKYAKQLKGDKNKIQKLVQMAWTFVNDSLCTTLSL 190
Query: 219 QWEPEIIAVALMYLAGKLSKFEVVDWIGRNSKHLRWWEMFVEDMTMDLLEDICHQVLDLY 278
QWEPEIIAVA+MYLAG+L KFE+ +W + RWWE FV+D+ +D+LEDICHQ+LDLY
Sbjct: 191 QWEPEIIAVAVMYLAGRLCKFEIQEWTSKPMYR-RWWEQFVQDVPVDVLEDICHQILDLY 249
Query: 279 SQSQQQASQ 287
SQ +QQ
Sbjct: 250 SQGKQQMPH 258
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P-
TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1
a.74.1.1 PDB: 2w2h_C
Length = 358
Score = 246 bits (628), Expect = 1e-78
Identities = 83/325 (25%), Positives = 150/325 (46%), Gaps = 14/325 (4%)
Query: 43 WYFDKKDIRNSPSFREGIDYETEQRYRREGARFIIDCGTKMDLGYNTMATGVVFFHRFYM 102
WYF ++ + NSPS R G+D + E YR++ A + D G ++++ T+ T +V+ HRFYM
Sbjct: 12 WYFTREQLENSPSRRFGVDPDKELSYRQQAANLLQDMGQRLNVSQLTINTAIVYMHRFYM 71
Query: 103 YHSFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTARMLVDDKKFKTFGDD-----PRE 157
SF FP A LFLA KVEE PKK + VIK A + ++ +
Sbjct: 72 IQSFTRFPGNSVAPAALFLAAKVEEQPKKLEHVIKVAHTCLHPQESLPDTRSEAYLQQVQ 131
Query: 158 EVMTLERILLQTIKFDLQVDHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSL-CTTL 216
+++ LE I+LQT+ F+L +DHP++ ++K + ++ K + Q ++ +SL TT
Sbjct: 132 DLVILESIILQTLGFELTIDHPHTHVVKCTQLVRASK----DLAQTSYFMATNSLHLTTF 187
Query: 217 CLQWEPEIIAVALMYLAGKLSKFEVVDWIGRNSKHLRWWEMFVEDMTMDLLEDICHQVLD 276
LQ+ P ++A ++LA K S +E+ WWE +T++LL+++ H+ L
Sbjct: 188 SLQYTPPVVACVCIHLACKWSNWEIPVSTDGK----HWWEYVDATVTLELLDELTHEFLQ 243
Query: 277 LYSQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRV 336
+ ++ + + + + TK + + +
Sbjct: 244 ILEKTPNRLKRIWNWRACEAAKKTKADDRGTDEKTSEQGGTGGGSGGGSGGGSGGGTSGG 303
Query: 337 APPPSGHYPNPYPAHPVPIPNIHPV 361
P + P + + + +
Sbjct: 304 VPGQNTGGQEARPNYHCQLCFLRSL 328
>2ivx_A Cyclin-T2; transcription regulation, cell division,
phosphorylation, NU protein, cell cycle, transcription;
1.8A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_A
3mi9_B* 3mia_B* 3tnh_B* 3tni_B* 3blh_B* 3blq_B* 3blr_B*
3lq5_B* 3my1_B* 3tn8_B*
Length = 257
Score = 233 bits (596), Expect = 3e-75
Identities = 75/260 (28%), Positives = 141/260 (54%), Gaps = 14/260 (5%)
Query: 43 WYFDKKDIRNSPSFREGIDYETEQRYRREGARFIIDCGTKMDLGYNTMATGVVFFHRFYM 102
W+F ++ + N+PS R G++ + E R++ A I + G ++++ T+ T +V+ HRFYM
Sbjct: 5 WFFTREQLENTPSRRCGVEADKELSCRQQAANLIQEMGQRLNVSQLTINTAIVYMHRFYM 64
Query: 103 YHSFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTARMLVDDKKFKTFGDDP-----RE 157
+HSF F + + +S LFLA KVEE +K + VIK A + +
Sbjct: 65 HHSFTKFNKNIISSTALFLAAKVEEQARKLEHVIKVAHACLHPLEPLLDTKCDAYLQQTR 124
Query: 158 EVMTLERILLQTIKFDLQVDHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLC-TTL 216
E++ LE I+LQT+ F++ ++HP++ ++K + ++ K + Q ++ +SL TT
Sbjct: 125 ELVILETIMLQTLGFEITIEHPHTDVVKCTQLVRASK----DLAQTSYFMATNSLHLTTF 180
Query: 217 CLQWEPEIIAVALMYLAGKLSKFEVVDWIGRNSKHLRWWEMFVEDMTMDLLEDICHQVLD 276
CLQ++P +IA ++LA K S +E+ + WWE +T++LL+++ H+ L
Sbjct: 181 CLQYKPTVIACVCIHLACKWSNWEIPVS----TDGKHWWEYVDPTVTLELLDELTHEFLQ 236
Query: 277 LYSQSQQQASQQDSPPQTQP 296
+ ++ + + + Q
Sbjct: 237 ILEKTPNRLKKIRNWRANQA 256
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET:
BAX; 2.20A {Homo sapiens}
Length = 285
Score = 217 bits (554), Expect = 2e-68
Identities = 69/275 (25%), Positives = 115/275 (41%), Gaps = 21/275 (7%)
Query: 42 YWYFDKKDIRN-SPSFREGIDYETEQRYRREGARFIIDCGTKMDLGYNTMATGVVFFHRF 100
W DK+D+ + + E + + I G + L +AT V+F RF
Sbjct: 15 QWILDKQDLLKERQKDLKFLSEEEYWKLQIFFTNVIQALGEHLKLRQQVIATATVYFKRF 74
Query: 101 YMYHSFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTARMLVDDKKFKTFGDD----PR 156
Y +S K+ + A C+FLA KVEE + A V +F
Sbjct: 75 YARYSLKSIDPVLMAPTCVFLASKVEEFGVVSNTRLIAAATSVLKTRFSYAFPKEFPYRM 134
Query: 157 EEVMTLERILLQTIKFDLQVDHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTL 216
++ E LL+ + L V HPY LL+Y + D + + +L +AW VND+ T L
Sbjct: 135 NHILECEFYLLELMDCCLIVYHPYRPLLQYVQ----DMGQEDMLLPLAWRIVNDTYRTDL 190
Query: 217 CLQWEPEIIAVALMYLAGKLSKFEVVDWIGRNSKHLRWWEMFVEDMTMDLLEDICHQVLD 276
CL + P +IA+A +++A + + + +W+ + M+ + +I +L
Sbjct: 191 CLLYPPFMIALACLHVACVVQQKDAR----------QWFAEL--SVDMEKILEIIRVILK 238
Query: 277 LYSQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPS 311
LY Q + +++ P KPPP S
Sbjct: 239 LYEQWKNFDERKEMATILSKMPKPKPPPNSEGEQG 273
>1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo
sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A
Length = 323
Score = 212 bits (540), Expect = 8e-66
Identities = 42/247 (17%), Positives = 94/247 (38%), Gaps = 17/247 (6%)
Query: 47 KKDIRNSPSFREGIDYETEQRYRREGARFIIDCGT--KMDLGYNTMATGVVFFHRFYMYH 104
+ + P+ ++ E + + +++ + K + + + T ++F RFY+ +
Sbjct: 35 VANGKVLPNDPVFLEPHEEMTLCKYYEKRLLEFCSVFKPAMPRSVVGTACMYFKRFYLNN 94
Query: 105 SFKTFPRYVTASCCLFLAGKVEETPKKCKDVIKTARMLVDDKKFKTFGDDPREEVMTLER 164
S + + C FLA KV+E + R + + E+++ E
Sbjct: 95 SVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESPLGQ------EKALEQILEYEL 148
Query: 165 ILLQTIKFDLQVDHPYSFLLKYAKSLK---GDKTKLEKMLQMAWTFVNDSLCTTLCLQWE 221
+L+Q + F L V +PY + LK E + + A F+N T L +
Sbjct: 149 LLIQQLNFHLIVHNPYRPFEGFLIDLKTRYPILENPEILRKTADDFLNRIALTDAYLLYT 208
Query: 222 PEIIAVALMYLAGKLSKFEVVDWIGRNSKHLRWWEMFVEDMTMDLLEDICHQVLDLYSQS 281
P IA+ + + + + ++ + + + L DI + +L +
Sbjct: 209 PSQIALTAILSSASRAGITMESYLSESL----MLKEN--RTCLSQLLDIMKSMRNLVKKY 262
Query: 282 QQQASQQ 288
+ S++
Sbjct: 263 EPPRSEE 269
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat
domains, transcription-cell cycle complex; 3.00A
{Schizosaccharomyces pombe}
Length = 235
Score = 194 bits (493), Expect = 6e-60
Identities = 44/247 (17%), Positives = 94/247 (38%), Gaps = 23/247 (9%)
Query: 44 YFDKKDIRN--SPSFREGIDYETEQRYRREGARFIIDCGTKMDLGYNTMATGVVFFHRFY 101
Y+ + + E ++ + + + G ++ L +AT +V R+
Sbjct: 1 YWASSQLTQLFLSTDLESLEPTCLSKDTIYQWKVVQTFGDRLRLRQRVLATAIVLLRRYM 60
Query: 102 MYHSF-KTFPRYVTASCCLFLAGKVEETPKKCKDVIKTARMLVDDKKFKTFGDDPREEVM 160
+ + K F + C++L+ KVEE P + + A L K + R +
Sbjct: 61 LKKNEEKGFSLEALVATCIYLSCKVEECPVHIRTICNEANDLWSLKVKLS-----RSNIS 115
Query: 161 TLERILLQTIKFDLQVDHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQW 220
+E ++ + L V HPY+ L + ++ K L+ AW+ VNDS ++LCL
Sbjct: 116 EIEFEIISVLDAFLIVHHPYTSLEQAFHDGIINQ----KQLEFAWSIVNDSYASSLCLMA 171
Query: 221 EPEIIAVALMYLAGKLSKFEVVDWIGRNSKHLRWWEMFVEDMTMDLLEDICHQVLDLYSQ 280
P +A A + ++ + + ++ + +++ +Y
Sbjct: 172 HPHQLAYAALLISCCNDENT-----------IPKLLDLIKSTDAFKVILCVQRIISIYYF 220
Query: 281 SQQQASQ 287
+A+
Sbjct: 221 EDIEAAA 227
>3g33_B CCND3 protein; Ser/Thr protein kinase, cell cycle, phosphorylation,
ATP-BIN cell division, disease mutation, kinase; 3.00A
{Homo sapiens}
Length = 306
Score = 68.3 bits (167), Expect = 5e-13
Identities = 37/198 (18%), Positives = 70/198 (35%), Gaps = 25/198 (12%)
Query: 118 CLFLAGKVEET-PKKCKDVIKTARMLVDDKKFKTFGDDPREEVMTLERILLQTIKFDLQV 176
C+ LA K+ ET P + + D ++ E ++L +K+DL
Sbjct: 120 CMLLASKLRETTPLTIEKLCIYT-----DHAV------SPRQLRDWEVLVLGKLKWDLAA 168
Query: 177 DHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKL 236
+ FL L + + + + A TF+ + P +IA + A +
Sbjct: 169 VIAHDFLAFILHRLSLPRDRQALVKKHAQTFLALCATDYTFAMYPPSMIATGSIGAAVQG 228
Query: 237 SKFEVVDWIGRNSKHLRWWEMFVEDMT---MDLLEDICHQVLDLYSQSQQQASQ--QDSP 291
+G S + +T +D L Q+ +S ++A+Q
Sbjct: 229 --------LGACSMSGDELTELLAGITGTEVDCLRACQEQIEAALRESLREAAQTSSSPA 280
Query: 292 PQTQPEPSTKPPPQSHLP 309
P+ S++ P Q+ P
Sbjct: 281 PKAPRGSSSQGPSQTSTP 298
>2w96_A G1/S-specific cyclin-D1; serine/threonine-protein kinase,
chromosomal rearrangement, ATP-binding, transferase,
polymorphism, cell division; 2.30A {Homo sapiens} PDB:
2w99_A 2w9f_A 2w9z_A
Length = 271
Score = 67.8 bits (166), Expect = 6e-13
Identities = 32/173 (18%), Positives = 67/173 (38%), Gaps = 17/173 (9%)
Query: 118 CLFLAGKVEET-PKKCKDVIKTARMLVDDKKFKTFGDDPREEVMTLERILLQTIKFDLQV 176
C+F+A K++ET P + + + D+ + EE++ +E +L+ +K++L
Sbjct: 106 CMFVASKMKETIPLTAEKLC----IYTDN----SI---RPEELLQMELLLVNKLKWNLAA 154
Query: 177 DHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKL 236
P+ F+ + + + + + + A TFV + P ++A + A +
Sbjct: 155 MTPHDFIEHFLSKMPEAEENKQIIRKHAQTFVALCATDVKFISNPPSMVAAGSVVAAVQG 214
Query: 237 SKFEVVDWIGRNSKHLRWWEMFVEDM--TMDLLEDICHQVLDLYSQSQQQASQ 287
+ + R + D L Q+ L S +QA Q
Sbjct: 215 --LNLRSP-NNFLSYYRLTRFLSRVIKCDPDCLRACQEQIEALLESSLRQAQQ 264
>1f5q_B Gamma herpesvirus cyclin; herpesviral cyclin, cyclin dependent
kinase. protein/protein complex, transferase; 2.50A
{Murid herpesvirus 4} SCOP: a.74.1.1 a.74.1.1
Length = 252
Score = 66.7 bits (163), Expect = 9e-13
Identities = 32/242 (13%), Positives = 67/242 (27%), Gaps = 35/242 (14%)
Query: 60 IDYETEQR-----YRREGARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFPRYVT 114
+ + YR+ ++ + N V ++ T
Sbjct: 35 MVGVNVDQHFTSQYRKVLTTWMFCVCKDLRQDNNVFPLAVALLDELFLSTRIDRENYQST 94
Query: 115 ASCCLFLAGKVEET-PKKCKDVIKTARMLVDDKKFKTFGDDPREEVMTLERILLQTIKFD 173
A+ L +AGKV P K + L ++++TLE L T+ +
Sbjct: 95 AAVALHIAGKVRAYMPIKATQLA----YLCGG----AT---TADKLLTLEVKSLDTLSWV 143
Query: 174 LQVDHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLA 233
+ + + + + + +LC P +I +A M+L
Sbjct: 144 ADRCLSTDLICYILHIMHAPREDYLNIYNLCRPKIFCALCDGRSAMKRPVLITLACMHLT 203
Query: 234 GKLSKFEVVDWIGRNSKHLRWWEMFVE-----DMTMDLLEDICHQVLDLYSQSQQQASQQ 288
N K+ + +T + L C V + +
Sbjct: 204 -------------MNQKYDYYENRIDGVCKSLYITKEELHQCCDLVDIAIVSFDENYFKI 250
Query: 289 DS 290
++
Sbjct: 251 NA 252
>1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin,
cell cycle, signaling protein; 2.90A {Human herpesvirus
8} SCOP: a.74.1.1 a.74.1.1
Length = 257
Score = 64.0 bits (156), Expect = 7e-12
Identities = 27/172 (15%), Positives = 51/172 (29%), Gaps = 22/172 (12%)
Query: 117 CCLFLAGKVEET-PKKCKDVIKTARMLVDDKKFKTFGDDPREEVMTLERILLQTIKFDLQ 175
CL +A K+ P + D +F R+E++ E+ LL+ + + +
Sbjct: 99 ACLLVASKLRSLTPISTSSLC----YAAAD----SF---SRQELIDQEKELLEKLAWRTE 147
Query: 176 VDHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGK 235
L G L+ T + +L L II+ A L
Sbjct: 148 AVLATDVTSFLLLKLVGGSQHLDFWHHEVNTLITKALVDPLTGSLPASIISAAGCALLVP 207
Query: 236 LSKFEVVDWIGRNSKHLRWWEMFVEDMT---MDLLEDICHQVLDLYSQSQQQ 284
+ H + + + +L+ Q+L S +
Sbjct: 208 A-------NVIPQDTHSGGVVPQLASILGCDVSVLQAAVEQILTSVSDFDLR 252
>2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between
N-terminal and C-TERM domain of kinase, cell
cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus
saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A*
1xo2_A* 1bu2_A
Length = 254
Score = 63.5 bits (155), Expect = 1e-11
Identities = 25/169 (14%), Positives = 59/169 (34%), Gaps = 17/169 (10%)
Query: 118 CLFLAGKVEET-PKKCKDVIKTARMLVDDKKFKTFGDDPREEVMTLERILLQTIKFDLQV 176
C+ + K+ P + L D F E++ E+ +L+ +K+D +
Sbjct: 101 CVLIGSKIRTVKPMTVSKLT----YLSCD----CF---TNLELINQEKDILEALKWDTEA 149
Query: 177 DHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKL 236
FL+ +LK + ++ + A T + +L P +I + +
Sbjct: 150 VLATDFLIPLCNALKIPEDLWPQLYEAASTTICKALIQPNIALLSPGLICAGGLLTTIET 209
Query: 237 SKFEVVDWIGRNSKHLRWWEMFVEDMTMDLLEDICHQVLDLYSQSQQQA 285
W + +L + + + + + + QV + +S +
Sbjct: 210 DNTNCRPW----TCYLEDLSSIL-NFSTNTVRTVKDQVSEAFSLYDLEI 253
>1w98_B Cyclin E, G1/S-specific cyclin E1; cell cycle, transferase; HET:
TPO; 2.15A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1
Length = 283
Score = 57.8 bits (140), Expect = 1e-09
Identities = 22/125 (17%), Positives = 49/125 (39%), Gaps = 19/125 (15%)
Query: 117 CCLFLAGKVEET-PKKCKDVIKTARMLVDDKKFKTFGDDPREEVMTLERILLQTIKFDLQ 175
LF+A K+EE P K + D +E++T+E ++++ +K+ L
Sbjct: 99 SSLFIAAKLEEIYPPKLHQFA----YVTDG----AC---SGDEILTMELMIMKALKWRLS 147
Query: 176 VDHPYSFLLKYAKSLKGDKTKL-------EKMLQMAWTFVNDSLCTTLCLQWEPEIIAVA 228
S+L Y + + +++ ++ + CL++ I+A +
Sbjct: 148 PLTIVSWLNVYMQVAYLNDLHEVLLPQYPQQIFIQIAELLDLCVLDVDCLEFPYGILAAS 207
Query: 229 LMYLA 233
+Y
Sbjct: 208 ALYHF 212
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B*
Length = 269
Score = 56.2 bits (136), Expect = 3e-09
Identities = 29/170 (17%), Positives = 66/170 (38%), Gaps = 23/170 (13%)
Query: 118 CLFLAGKVEE-TPKKCKDVIKTARMLVDDKKFKTFGDDPREEVMTLERILLQTIKFDLQV 176
+F+A K EE P + D V D + + ++ +E +L+ + F L
Sbjct: 87 AMFIASKYEEMYPPEIGDFAF-----VTDNTYT------KHQIRQMEMKILRALNFGLGR 135
Query: 177 DHPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKL 236
P FL + +K + D + +A + ++ + + P IA LA K+
Sbjct: 136 PLPLHFLRRASKIGEVD----VEQHTLAKYLMELTMLDYDMVHFPPSQIAAGAFSLALKI 191
Query: 237 SKFEVVDWIGRNSKHLRWWEMFVEDMTMDLLEDICHQVLDLYS-QSQQQA 285
+W + L+ + + E+ + +++ + V+ + ++
Sbjct: 192 LDNG--EW----TPTLQHYLSYTEESLLPVMQHLAKNVVMVNQGLTKHMT 235
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein,
abnormal nuclear; zinc-finger, beta barrel, VWA domain,
gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP:
a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1
Length = 926
Score = 52.9 bits (126), Expect = 1e-07
Identities = 26/111 (23%), Positives = 38/111 (34%), Gaps = 7/111 (6%)
Query: 278 YSQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVA 337
Y Q+Q Q Q +P Q P+ PPQ + PP A+P++G Q
Sbjct: 9 YPQAQLQYGQNATPLQQ---PAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQF---- 61
Query: 338 PPPSGHYPNPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQ 388
P+ + N +H V Y + P G+ Q Q
Sbjct: 62 LTPAQEQLHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQ 112
Score = 47.9 bits (113), Expect = 4e-06
Identities = 15/120 (12%), Positives = 24/120 (20%)
Query: 280 QSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPP 339
Q P Q + T Q H + + +P + + P
Sbjct: 43 GQMGMPPQGAVPSMGQQQFLTPAQEQLHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVP 102
Query: 340 PSGHYPNPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQTRSCSTTPLCH 399
P P+ P A + + P T P
Sbjct: 103 VQMGTPLQQQQQPMAAPAYGQPSAAMGQNMRPMNQLYPIDLLTELPPPITDLTLPPPPLV 162
Score = 45.2 bits (106), Expect = 3e-05
Identities = 17/110 (15%), Positives = 23/110 (20%), Gaps = 2/110 (1%)
Query: 279 SQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAP 338
Q Q P P PS + + P + Q +
Sbjct: 23 LQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQLHQQIDQATTSMND 82
Query: 339 PPSGHYPNPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQ 388
+ P P + PV P Q P S Q
Sbjct: 83 MHLHNVPLVDP--NAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMGQ 130
Score = 35.6 bits (81), Expect = 0.033
Identities = 20/141 (14%), Positives = 38/141 (26%), Gaps = 3/141 (2%)
Query: 272 HQVLDLYSQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQ 331
HQ +D + S + P P P + + +A P P+
Sbjct: 70 HQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMG 129
Query: 332 YPQRVAPPPSGHYPNPYPAHPVPIPNIH-PVHAVVPPGSQYYGHHRPPPAAGSTQQTQTR 390
Q + P + + P PI ++ P +V P + A+ ++
Sbjct: 130 --QNMRPMNQLYPIDLLTELPPPITDLTLPPPPLVIPPERMLVPSELSNASPDYIRSTLN 187
Query: 391 SCSTTPLCHSYPGSPISTTCS 411
+ P
Sbjct: 188 AVPKNSSLLKKSKLPFGLVIR 208
>2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division),
ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear
protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP:
a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B*
1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B*
2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B*
2x1n_B* 1vyw_B* ...
Length = 260
Score = 49.6 bits (119), Expect = 5e-07
Identities = 29/117 (24%), Positives = 50/117 (42%), Gaps = 14/117 (11%)
Query: 118 CLFLAGKVEETPKKCKDVIKTARMLVDDKKFKTFGDDPREEVMTLERILLQTIKFDLQVD 177
+ LA K EE + + DD T+ +++V+ +E ++L+ + FDL
Sbjct: 88 AMLLASKFEE---IYPPEVAEFVYITDD----TY---TKKQVLRMEHLVLKVLTFDLAAP 137
Query: 178 HPYSFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSL-CTTLCLQWEPEIIAVALMYLA 233
FL +Y + K+E +A SL L++ P +IA A +LA
Sbjct: 138 TVNQFLTQYFLHQQPANCKVE---SLAMFLGELSLIDADPYLKYLPSVIAGAAFHLA 191
>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 = 49.5 bits (117), Expect = 2e-06
Identities = 32/200 (16%), Positives = 63/200 (31%), Gaps = 48/200 (24%)
Query: 30 HQICLIE------SVTMPYWYFD-KKDIRNSPSF-REGID-YETEQRYRREGARFIIDCG 80
H+ L+E ++++P Y + K + N + R +D Y + + + D
Sbjct: 412 HKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSD------DLI 465
Query: 81 TKMDLGYNTMATGVVFFHRFYMYH--------SFKTFPR-YVTASCCLFLAGKVEETPKK 131
Y F+ +H F ++ FL K+
Sbjct: 466 PPYLDQY---------FYSHIGHHLKNIEHPERMTLFRMVFLDFR---FLEQKIRHDSTA 513
Query: 132 CKDVIKTARMLVDDKKFKTF--GDDPREEVMTLERILLQTIKFDLQ-----VDHPYSFLL 184
L K +K + +DP ER++ + F + + Y+ LL
Sbjct: 514 WNASGSILNTLQQLKFYKPYICDNDP-----KYERLVNAILDFLPKIEENLICSKYTDLL 568
Query: 185 KYAKSLKGDKTKLEKMLQMA 204
+ A + + E Q+
Sbjct: 569 RIALMAEDEAIFEEAHKQVQ 588
Score = 44.8 bits (105), Expect = 4e-05
Identities = 50/314 (15%), Positives = 101/314 (32%), Gaps = 90/314 (28%)
Query: 45 FDKKDIRNSP----SFREGIDYETEQRYRREGARFIIDC-------------GTKMDLGY 87
FD KD+++ P S E ID+ + G + + + Y
Sbjct: 33 FDCKDVQDMPKSILSKEE-IDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINY 91
Query: 88 N-------------TMATGVVFFHRFYMYHSFKTFPRY-VT-ASCCLFLAGKVEETPKKC 132
+M T + R +Y+ + F +Y V+ L L + E +
Sbjct: 92 KFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLEL-RPA 150
Query: 133 KDVI--------KT--ARMLVDDKKFK----------TFGDDPREEVMTLERILLQTIKF 172
K+V+ KT A + K + + E +L K
Sbjct: 151 KNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPET-----VLEMLQKL 205
Query: 173 DLQVDHPYSFLLKYAKSLKGDKTKLE---KMLQMAWTFVNDSLCTTLCLQ--WEPEIIAV 227
Q+D ++ ++ ++K ++ + L + + N L L L +
Sbjct: 206 LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN-CL---LVLLNVQNAKAWNA 261
Query: 228 ------ALMYLAGKLSKF-EVVDWI-GRNSKHLRWWEMFVEDMTMDLLEDICHQVLDLYS 279
L+ ++F +V D++ + H+ + +T D ++ + + LD
Sbjct: 262 FNLSCKILL-----TTRFKQVTDFLSAATTTHIS-LDHHSMTLTPDEVKSLLLKYLDC-- 313
Query: 280 QSQQQASQQDSPPQ 293
QD P +
Sbjct: 314 ------RPQDLPRE 321
Score = 40.2 bits (93), Expect = 0.001
Identities = 29/235 (12%), Positives = 74/235 (31%), Gaps = 70/235 (29%)
Query: 132 CKDVIKTARMLVDDKKFKTFGDDPREEVMTL----------ERILLQTIKFDLQVDHPYS 181
CKDV + ++ ++ TL E ++ + ++ L+++ Y
Sbjct: 35 CKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRIN--YK 92
Query: 182 FLL-KYAKSLKGDKTKLEKMLQMAWTFVNDS----------------LCTTLCLQWEPE- 223
FL+ + ++ ND+ L L L+ P
Sbjct: 93 FLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQAL-LELRPAK 151
Query: 224 IIAVALMYLAGK-------LSKFEVVD-------WI--GRNSKHLRWWEMFVEDMTMDLL 267
+ + + +GK ++V W+ + + +++L
Sbjct: 152 NVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNS---------PETVLEML 202
Query: 268 EDICHQVLDLYSQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPH 322
+ + +Q+ D ++ + S+ + H ++L+ L + P+
Sbjct: 203 QKLLYQI--------------DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY 243
>2z73_A Rhodopsin; visual pigment, GQ-type, G-protein coupled receptor,
chromophore, glycoprotein, lipoprotein, membrane,
palmitate phosphorylation; HET: BOG RET PLM TWT PC1;
2.50A {Todarodes pacificus} PDB: 3aym_A* 3ayn_A* 2ziy_A*
Length = 448
Score = 43.4 bits (102), Expect = 1e-04
Identities = 21/76 (27%), Positives = 26/76 (34%), Gaps = 2/76 (2%)
Query: 279 SQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAP 338
S Q + + Q + PPQ + PP + P PP P PQ P
Sbjct: 365 SADAAQMKEMMAMMQKMQQQQAAYPPQGYAPPPQGYPPQGYPPQGYPP--QGYPPQGYPP 422
Query: 339 PPSGHYPNPYPAHPVP 354
PP G P P P
Sbjct: 423 PPQGAPPQGAPPAAPP 438
Score = 35.3 bits (81), Expect = 0.030
Identities = 18/105 (17%), Positives = 28/105 (26%), Gaps = 4/105 (3%)
Query: 263 TMDLLEDICHQVLDLYSQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPH 322
T + C + ++ + + PS + +
Sbjct: 329 TFPWVLTCCQFDDKETEDDKDAETEIPAGESSDAAPSA--DAAQMKEMMAMMQKMQQQQA 386
Query: 323 SAIPTLGAQYPQRVAPPPSGHYPNPYPAHPVPIPNIHPVHAVVPP 367
+ P A PQ PP G+ P YP P P PP
Sbjct: 387 AYPPQGYAPPPQ--GYPPQGYPPQGYPPQGYPPQGYPPPPQGAPP 429
Score = 32.6 bits (74), Expect = 0.24
Identities = 17/56 (30%), Positives = 19/56 (33%), Gaps = 3/56 (5%)
Query: 279 SQSQQQASQQDSPPQTQPEPSTKP---PPQSHLPPSKLKPDLVAPPHSAIPTLGAQ 331
Q+ PPQ P P PPQ + P P APP A P Q
Sbjct: 384 QQAAYPPQGYAPPPQGYPPQGYPPQGYPPQGYPPQGYPPPPQGAPPQGAPPAAPPQ 439
>1ais_B TFB TFIIB, protein (transcription initiation factor IIB);
hyperthermophIle, ribosome binding, complex (ribosome
binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei}
SCOP: a.74.1.2 a.74.1.2 PDB: 1d3u_B*
Length = 200
Score = 41.1 bits (96), Expect = 2e-04
Identities = 19/181 (10%), Positives = 56/181 (30%), Gaps = 19/181 (10%)
Query: 63 ETEQRYRREGARFIIDCGTKMDLGYNTMATGVVFFHRFYMYHSFKTFPRYVTASCCLFLA 122
+ +R + ++ L + + + + C++ A
Sbjct: 3 DAAERNLAFALSELDRITAQLKLPRHVEEEAARLYREAVRKGLIRGRSIESVMAACVYAA 62
Query: 123 GKVEETPKKCKDVIKTARMLVDDKKFKTFGDDPREEVMTLERILLQT--IKFDLQVDHPY 180
++ + P+ ++ AR+ ++E+ R + + + P
Sbjct: 63 CRLLKVPRTLDEIADIARV-------------DKKEIGRSYRFIARNLNLTPKKLFVKPT 109
Query: 181 SFLLKYAKSLKGDKTKLEKMLQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAGKLSKFE 240
++ K+A L + + +++ L + P + A +Y+A L +
Sbjct: 110 DYVNKFADELGLSEKVRRRAIEILDEAYKRGLTSG----KSPAGLVAAALYIASLLEGEK 165
Query: 241 V 241
Sbjct: 166 R 166
>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 = 42.7 bits (100), Expect = 2e-04
Identities = 61/440 (13%), Positives = 113/440 (25%), Gaps = 184/440 (41%)
Query: 73 ARFIIDCGTKMDLGYNTMATGVV-----FFHRFYMY----HSFKTFPRYVTASCCLFLAG 123
+F+ + ++ V+ F Y+ H+ A L
Sbjct: 62 GKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHAL-------AAK----LLQ 110
Query: 124 KVEETPKKCKDVIKT---ARML----------------VDDKKFKT---FG-----DDPR 156
+ + T K K++IK AR++ V + + FG DD
Sbjct: 111 ENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYF 170
Query: 157 EE-------------------VMTLERILLQTIK--------FDLQ--VDHPYS-----F 182
EE TL ++ T+ ++ +++P + +
Sbjct: 171 EELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDY 230
Query: 183 LLKYAKSLKGDKTKLEKMLQMAWTFV------------NDSLC-TTLCLQWEPEIIAVAL 229
LL S L ++Q+A V L T Q ++
Sbjct: 231 LLSIPISCP-----LIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQ---GLVTAVA 282
Query: 230 MYLAGKLSKFEVVDWIGRNSKHLRWWEMFVEDMTMDLLEDICHQVLDLY----SQSQQQA 285
+ WE F + + + + +
Sbjct: 283 IAETDS-------------------WESF---------FVSVRKAITVLFFIGVRCYEAY 314
Query: 286 SQQDSPP---QTQPEPSTKPP-PQ---SHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAP 338
PP + E + P P S+L +++ + + +
Sbjct: 315 PNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYV------------NKTNSHL-- 360
Query: 339 PPSGHYPNPYPAHPVPIPNIH-PVHAVV--PPGSQYYG---HHRPPPAAGSTQQTQTRSC 392
P V I ++ + VV PP S YG R A Q++
Sbjct: 361 PAGKQ---------VEISLVNGAKNLVVSGPPQS-LYGLNLTLRKAKAPSGLDQSRIPFS 410
Query: 393 S------------TTPLCHS 400
+P HS
Sbjct: 411 ERKLKFSNRFLPVASP-FHS 429
Score = 28.9 bits (64), Expect = 3.9
Identities = 25/136 (18%), Positives = 41/136 (30%), Gaps = 49/136 (36%)
Query: 72 GAR-FIIDCGTKMDL-GYNTM------ATG------------VVFFHRFYM----YHSFK 107
GA+ ++ G L G N +G + F +RF +HS
Sbjct: 373 GAKNLVV-SGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHS-- 429
Query: 108 TFPRYVTASCCLFLAGKVEETPK--KCKDVIKTARML---VDDKKFKTF-GDDPREEVMT 161
L + K +V A+ + V + TF G D R +
Sbjct: 430 --H---------LLVPASDLINKDLVKNNVSFNAKDIQIPV----YDTFDGSDLRVLSGS 474
Query: 162 LERILLQTIKFDLQVD 177
+ ++ I L V
Sbjct: 475 ISERIVDCI-IRLPVK 489
>3dzy_A Retinoic acid receptor RXR-alpha; DNA-binding, HOST-virus
interaction, metal-binding, nucleus, receptor,
transcription, transcription regulation, zinc-FIN
activator; HET: DNA REA BRL; 3.10A {Homo sapiens} PDB:
3dzu_A* 3e00_A*
Length = 467
Score = 39.3 bits (91), Expect = 0.002
Identities = 16/136 (11%), Positives = 33/136 (24%), Gaps = 3/136 (2%)
Query: 272 HQVLDLYSQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQ 331
H + + ++Q +S + + P H P + +P P
Sbjct: 4 HHHHHVDDDDKMFSTQVNSSLTSPTGRGSMAAPSLHPSLG---PGIGSPGQLHSPISTLS 60
Query: 332 YPQRVAPPPSGHYPNPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQTRS 391
P PP +P H + +P + + +
Sbjct: 61 SPINGMGPPFSVISSPMGPHSMSVPTTPTLGFSTGSPQLSSPMNPVSSSEDIKPPLGLNG 120
Query: 392 CSTTPLCHSYPGSPIS 407
P S + +
Sbjct: 121 VLKVPAHPSGNMASFT 136
Score = 32.8 bits (74), Expect = 0.23
Identities = 20/128 (15%), Positives = 28/128 (21%), Gaps = 26/128 (20%)
Query: 287 QQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYPN 346
ST+ P A P+L + P H P
Sbjct: 5 HHHHVDDDDKMFSTQVNSSLTSPTG--------RGSMAAPSLHPSLGPGIGSPGQLHSPI 56
Query: 347 PYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQTRSCSTTPLCHSYPGSPI 406
+ P+ G P S + S TTP GSP
Sbjct: 57 STLSSPIN------------------GMGPPFSVISSPMGPHSMSVPTTPTLGFSTGSPQ 98
Query: 407 STTCSTTP 414
++
Sbjct: 99 LSSPMNPV 106
Score = 29.7 bits (66), Expect = 1.9
Identities = 19/104 (18%), Positives = 31/104 (29%), Gaps = 10/104 (9%)
Query: 290 SPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYPNPYP 349
SP Q ST P + + PP S I + + V P+ + P
Sbjct: 48 SPGQLHSPISTLSSPINGM----------GPPFSVISSPMGPHSMSVPTTPTLGFSTGSP 97
Query: 350 AHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQTRSCS 393
P+ + + PP P +G+ C+
Sbjct: 98 QLSSPMNPVSSSEDIKPPLGLNGVLKVPAHPSGNMASFTKHICA 141
>3v1v_A 2-MIB synthase, 2-methylisoborneol synthase; class I terpenoid
cyclase fold, DDXXXXD motif, NDXXSXXXE MOT
methylisoborneol biosynthesis; HET: GST; 1.80A
{Streptomyces coelicolor} PDB: 3v1x_A*
Length = 433
Score = 39.4 bits (91), Expect = 0.002
Identities = 20/125 (16%), Positives = 30/125 (24%), Gaps = 14/125 (11%)
Query: 284 QASQQDSPPQTQPEPSTKP----------PPQSHLPPSKLKPDLVAPPHSAIPTLGAQYP 333
P S PP + P+ P A + G
Sbjct: 12 SGLVPRGSHMVIPSASVTSAASDFLAALHPPVTVPDPAPPPPPAPAAGNPPDTVTGDSVL 71
Query: 334 QRVAPPPSGHYP-NPYPAHPVPIPNIHPVHAVVPPGSQYYG---HHRPPPAAGSTQQTQT 389
QR+ P+G + PA A PP + +H P P + +
Sbjct: 72 QRILRGPTGPGTTSLAPAVRYGRQPGPEAPASAPPAAGRAVPGLYHHPVPEPDPVRVEEV 131
Query: 390 RSCST 394
Sbjct: 132 SRRIK 136
>1pk8_A RAT synapsin I; ATP binding, ATP grAsp, calcium (II) ION, membrane
protein; HET: ATP; 2.10A {Rattus norvegicus} SCOP:
c.30.1.5 d.142.1.3 PDB: 1px2_A*
Length = 422
Score = 36.7 bits (84), Expect = 0.012
Identities = 17/115 (14%), Positives = 27/115 (23%), Gaps = 7/115 (6%)
Query: 278 YSQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVA 337
S S A+ + P PPP S P A P SA +
Sbjct: 9 LSDSNFMANLPNGYMTDLQRPQPPPPPPSAASPG-------ATPGSAAASAERASTAAPV 61
Query: 338 PPPSGHYPNPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQTRSC 392
P+ P + V + + + G+ +
Sbjct: 62 ASPAAPSPGSSGGGGFFSSLSNAVKQTTAAAAATFSEQVGGGSGGAGRGGAAARV 116
>1mv3_A MYC box dependent interacting protein 1; tumor suppressor,
endocytosis/exocytosis complex; NMR {Homo sapiens} SCOP:
b.34.2.1
Length = 213
Score = 35.8 bits (81), Expect = 0.014
Identities = 14/110 (12%), Positives = 25/110 (22%), Gaps = 2/110 (1%)
Query: 289 DSPPQTQPEPST--KPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYPN 346
D P PE +P P P P + P +
Sbjct: 1 DGSPAATPEIRVNHEPEPAGGATPGATLPKSPSQLRKGPPVPPPPKHTPSKEVKQEQILS 60
Query: 347 PYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQTRSCSTTP 396
+ VP ++ G A + + + S++
Sbjct: 61 LFEDTFVPEISVTTPSQPAEASEVAGGTQPAAGAQEPGETAASEAASSSL 110
Score = 32.4 bits (72), Expect = 0.21
Identities = 17/135 (12%), Positives = 27/135 (20%), Gaps = 9/135 (6%)
Query: 279 SQSQQQASQQDSPPQTQPEPSTKPP----PQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQ 334
+ A+ SP Q + P PP P + ++ I P
Sbjct: 20 GGATPGATLPKSPSQLRKGPPVPPPPKHTPSKEVKQEQILSLFEDTFVPEISVTTPSQPA 79
Query: 335 RVAPPPSGHYP-----NPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQT 389
+ G P P + VV +
Sbjct: 80 EASEVAGGTQPAAGAQEPGETAASEAASSSLPAVVVETFPATVNGTVEGGSGAGRLDLPP 139
Query: 390 RSCSTTPLCHSYPGS 404
H Y +
Sbjct: 140 GFMFKVQAQHDYTAT 154
Score = 27.4 bits (59), Expect = 8.6
Identities = 11/107 (10%), Positives = 18/107 (16%)
Query: 290 SPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYPNPYP 349
+ T K P Q P P P + P P
Sbjct: 19 AGGATPGATLPKSPSQLRKGPPVPPPPKHTPSKEVKQEQILSLFEDTFVPEISVTTPSQP 78
Query: 350 AHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQTRSCSTTP 396
A + A + + + +
Sbjct: 79 AEASEVAGGTQPAAGAQEPGETAASEAASSSLPAVVVETFPATVNGT 125
>3pgw_B SM B; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici
SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens}
PDB: 3cw1_A
Length = 231
Score = 35.8 bits (82), Expect = 0.014
Identities = 21/130 (16%), Positives = 30/130 (23%), Gaps = 3/130 (2%)
Query: 279 SQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAP 338
S + + +D+ P P + P V P G P R
Sbjct: 79 SMTVEGPPPKDTGIARVPLAGAAGGPGIGRAAGRGIPAGVPMPQ---APAGLAGPVRGVG 135
Query: 339 PPSGHYPNPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQTRSCSTTPLC 398
PS P V ++ +QY PP P
Sbjct: 136 GPSQQVMTPQGRGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGPPPGM 195
Query: 399 HSYPGSPIST 408
G P+
Sbjct: 196 RPPMGPPMGI 205
Score = 34.2 bits (78), Expect = 0.050
Identities = 19/89 (21%), Positives = 24/89 (26%)
Query: 291 PPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYPNPYPA 350
P Q P + + + + R APPP P P
Sbjct: 137 PSQQVMTPQGRGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGPPPGMR 196
Query: 351 HPVPIPNIHPVHAVVPPGSQYYGHHRPPP 379
P+ P P P G G PPP
Sbjct: 197 PPMGPPMGIPPGRGTPMGMPPPGMRPPPP 225
Score = 31.9 bits (72), Expect = 0.29
Identities = 19/98 (19%), Positives = 25/98 (25%), Gaps = 16/98 (16%)
Query: 282 QQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPS 341
Q + S P + P P P + PP
Sbjct: 143 TPQGRGTVAAAAAAATASIAGAPTQYPPG---------RGGPPPPMGRGAPPPGMMGPPP 193
Query: 342 GHYPNPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPP 379
G P P +P P+ PPG + PPP
Sbjct: 194 GMRPPMGPPMGIPPGRGTPMGM-PPPGMR------PPP 224
Score = 31.2 bits (70), Expect = 0.50
Identities = 16/100 (16%), Positives = 23/100 (23%), Gaps = 3/100 (3%)
Query: 290 SPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYPNPYP 349
P Q P + PS ++ P A YP
Sbjct: 117 GVPMPQAPAGLAGPVRGVGGPS---QQVMTPQGRGTVAAAAAAATASIAGAPTQYPPGRG 173
Query: 350 AHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQT 389
P P+ P ++ P PP + T
Sbjct: 174 GPPPPMGRGAPPPGMMGPPPGMRPPMGPPMGIPPGRGTPM 213
Score = 30.8 bits (69), Expect = 0.75
Identities = 14/97 (14%), Positives = 16/97 (16%), Gaps = 1/97 (1%)
Query: 291 PPQTQPEPSTKPPPQSHLP-PSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYPNPYP 349
P P P P + P +A A P G P P
Sbjct: 119 PMPQAPAGLAGPVRGVGGPSQQVMTPQGRGTVAAAAAAATASIAGAPTQYPPGRGGPPPP 178
Query: 350 AHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQ 386
P PP
Sbjct: 179 MGRGAPPPGMMGPPPGMRPPMGPPMGIPPGRGTPMGM 215
Score = 29.2 bits (65), Expect = 2.1
Identities = 15/81 (18%), Positives = 22/81 (27%), Gaps = 3/81 (3%)
Query: 280 QSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPP 339
Q + + + + P P PP P G + P P
Sbjct: 145 QGRGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGPPPGMRPPM---GP 201
Query: 340 PSGHYPNPYPAHPVPIPNIHP 360
P G P +P P + P
Sbjct: 202 PMGIPPGRGTPMGMPPPGMRP 222
Score = 28.5 bits (63), Expect = 4.0
Identities = 14/94 (14%), Positives = 19/94 (20%), Gaps = 1/94 (1%)
Query: 290 SPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQY-PQRVAPPPSGHYPNPY 348
P + PS + + PT P G P
Sbjct: 129 GPVRGVGGPSQQVMTPQGRGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGM 188
Query: 349 PAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAG 382
P + +PPG PP
Sbjct: 189 MGPPPGMRPPMGPPMGIPPGRGTPMGMPPPGMRP 222
>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25,
CFIM68, CPSF5, CPSF6, CPSF, 3' END processing,
processing, cleavage factor; 2.90A {Homo sapiens} PDB:
3q2t_C
Length = 229
Score = 35.5 bits (81), Expect = 0.017
Identities = 16/89 (17%), Positives = 24/89 (26%), Gaps = 10/89 (11%)
Query: 287 QQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYPN 346
Q S + Q +T+ S + +A P G + P G
Sbjct: 150 QFLSQFEMQSRKTTQSGQMSGEGKAGPP---GGSSRAAFPQGGRGRGRFPGAVPGGDRFP 206
Query: 347 PYPAHPVPIPNIHPVHAVVPPGSQYYGHH 375
P P P G ++ HH
Sbjct: 207 GPAGPGGPPP-------PFPAGQTHHHHH 228
Score = 32.4 bits (73), Expect = 0.22
Identities = 12/77 (15%), Positives = 18/77 (23%), Gaps = 3/77 (3%)
Query: 281 SQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPP 340
++Q SQ + + + PP P P
Sbjct: 148 NKQFLSQFEMQSRKTTQSGQMSGEGKAGPPGGSSRAAFPQGGRGRGRFPGAVPGGDRFPG 207
Query: 341 ---SGHYPNPYPAHPVP 354
G P P+PA
Sbjct: 208 PAGPGGPPPPFPAGQTH 224
>1deq_A Fibrinogen (alpha chain); coiled-coil, blood clotting; 3.50A {Bos
taurus} SCOP: i.9.1.1
Length = 390
Score = 36.0 bits (82), Expect = 0.019
Identities = 16/129 (12%), Positives = 26/129 (20%), Gaps = 2/129 (1%)
Query: 279 SQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAP 338
Q Q P K + A+ +
Sbjct: 189 EQVIAINLLPSRDIQYLPILKMSTITGPVPREFKSQLQEAPLEWKALLEMQQTKMVLETF 248
Query: 339 PPSGHYPNPYPAHPVPIPNIHPVHAVVP-PGSQYYGHHRP-PPAAGSTQQTQTRSCSTTP 396
GH + + P G+ G + P + + + S T
Sbjct: 249 GGDGHARGDSVSQGTGLAPGSPRKPGTSSIGNVNPGSYGPGSSGTWNPGRPEPGSAGTWN 308
Query: 397 LCHSYPGSP 405
PGS
Sbjct: 309 PGRPEPGSA 317
Score = 34.5 bits (78), Expect = 0.053
Identities = 14/136 (10%), Positives = 32/136 (23%), Gaps = 6/136 (4%)
Query: 279 SQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAP 338
Q++ + + ++ + P K + + G+
Sbjct: 239 QQTKMVLETFGGDGHARGDSVSQGTGLAPGSPRKPGTSSIGNVNPGSYGPGSSGTWNPGR 298
Query: 339 PPSGHYPNPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQTRSCSTTPLC 398
P G P P P PGS G + + +
Sbjct: 299 PEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSA------GTWNPGRPEPGSAGTWNPGRPE 352
Query: 399 HSYPGSPISTTCSTTP 414
G+ + + ++
Sbjct: 353 PGSAGTWNTGSSGSSS 368
Score = 33.3 bits (75), Expect = 0.12
Identities = 19/110 (17%), Positives = 30/110 (27%), Gaps = 6/110 (5%)
Query: 279 SQSQQQASQQDSPPQTQPEPSTKPPPQSHLP--PSKLKPDLVAPPHSAIPTLGAQYPQRV 336
+S +P + +P + P P P P + G P
Sbjct: 284 GSYGPGSSGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSA 343
Query: 337 APPPSGHYPNPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRP-PPAAGSTQ 385
G P P + P S +G+ RP P G+ +
Sbjct: 344 GTWNPG---RPEPGSAGTWNTGSSGSSSFRPDSSGHGNIRPSSPDWGTFR 390
Score = 31.8 bits (71), Expect = 0.37
Identities = 18/127 (14%), Positives = 30/127 (23%), Gaps = 4/127 (3%)
Query: 279 SQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAP 338
++ + Q + ++ P P + P G+
Sbjct: 252 GHARGDSVSQGTGLAPGSPRKPGTSSIGNVNPGSYGPGSSGTWNPGRPEPGSAGTWNPGR 311
Query: 339 PPSGHYPNPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQTRSCSTTPLC 398
P G P P P PGS + P + S S++
Sbjct: 312 PEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNTGSSGSSSF-- 369
Query: 399 HSYPGSP 405
P S
Sbjct: 370 --RPDSS 374
Score = 31.8 bits (71), Expect = 0.44
Identities = 15/113 (13%), Positives = 22/113 (19%), Gaps = 2/113 (1%)
Query: 279 SQSQQQASQQDSPPQTQPEPSTKPPPQSHLP--PSKLKPDLVAPPHSAIPTLGAQYPQRV 336
+ + +P P S P P P P + G P
Sbjct: 271 RKPGTSSIGNVNPGSYGPGSSGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSA 330
Query: 337 APPPSGHYPNPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQT 389
G P GS RP + + +
Sbjct: 331 GTWNPGRPEPGSAGTWNPGRPEPGSAGTWNTGSSGSSSFRPDSSGHGNIRPSS 383
Score = 31.0 bits (69), Expect = 0.80
Identities = 19/124 (15%), Positives = 31/124 (25%), Gaps = 12/124 (9%)
Query: 291 PPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPP-------SGH 343
P + + + P L + ++ G Q P +
Sbjct: 218 PREFKSQLQEAPLEWKALLEMQQTKMVLETFGGDGHARGDSVSQGTGLAPGSPRKPGTSS 277
Query: 344 YPNPYPAHPVPIPNIHPVHAVVPPGSQYYGH--HRPPPAAGSTQQTQTRSCSTTPLCHSY 401
N P P + PGS + P +AG+ + S
Sbjct: 278 IGNVNPGSYGPGSSGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSAGT---WN 334
Query: 402 PGSP 405
PG P
Sbjct: 335 PGRP 338
Score = 29.8 bits (66), Expect = 1.5
Identities = 17/136 (12%), Positives = 27/136 (19%), Gaps = 5/136 (3%)
Query: 271 CHQVLDLYSQSQQQASQQDSPPQTQPEPSTKPPPQ-SHLPPSKLKPDLVAPPHSAIPTLG 329
C + L+ + + Q + + P +LP K+ P L
Sbjct: 168 CSRALE-HKVDLEDYKNQQKQLEQVIAINLLPSRDIQYLPILKMSTITGPVPREFKSQLQ 226
Query: 330 AQYPQRVAPPPSGHYPNPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQT 389
+ A + G P S
Sbjct: 227 EAPLEWKALLEMQQTK-MVLETFGGDGHARGDSVSQGTGLAP--GSPRKPGTSSIGNVNP 283
Query: 390 RSCSTTPLCHSYPGSP 405
S PG P
Sbjct: 284 GSYGPGSSGTWNPGRP 299
>2grx_C Protein TONB; beta barrel, outer membrane, heterocomplex,
inter-protein beta sheet, protein-protein, metal
transport; HET: GCN KDO GMH FTT DAO MYR FCI; 3.30A
{Escherichia coli} SCOP: d.212.1.2 PDB: 1xx3_A
Length = 229
Score = 35.1 bits (80), Expect = 0.028
Identities = 16/98 (16%), Positives = 27/98 (27%), Gaps = 2/98 (2%)
Query: 282 QQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPS 341
+ + + P+ PEP + P P K KP P + + + V P+
Sbjct: 55 PEPVVEPEPEPEPIPEPPKEAPVVIEKPKPKPKP--KPKPVKKVQEQPKRDVKPVESRPA 112
Query: 342 GHYPNPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPP 379
+ N PA V +
Sbjct: 113 SPFENTAPARLTSSTATAATSKPVTSVASGPRALSRNQ 150
Score = 33.9 bits (77), Expect = 0.055
Identities = 23/134 (17%), Positives = 43/134 (32%), Gaps = 2/134 (1%)
Query: 272 HQVLDLYSQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQ 331
HQV++L + +Q + +P +P + +PPP+ + P + PP A +
Sbjct: 23 HQVIELPAPAQPISVTMVTPADLEPPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKP 82
Query: 332 YPQRVAPPPSGHYPNPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQTRS 391
P+ P P V P A +++ + +
Sbjct: 83 KPKPKPKPKPVKKVQEQPKRDVKPVESRPASPFENTAPARLTS--STATAATSKPVTSVA 140
Query: 392 CSTTPLCHSYPGSP 405
L + P P
Sbjct: 141 SGPRALSRNQPQYP 154
Score = 29.7 bits (66), Expect = 1.5
Identities = 16/114 (14%), Positives = 31/114 (27%), Gaps = 6/114 (5%)
Query: 281 SQQQASQQDSPPQ------TQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQ 334
S Q + +P Q P P P ++P+ P P +
Sbjct: 21 SVHQVIELPAPAQPISVTMVTPADLEPPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVVIE 80
Query: 335 RVAPPPSGHYPNPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQ 388
+ P P P ++ PV + + R + + ++
Sbjct: 81 KPKPKPKPKPKPVKKVQEQPKRDVKPVESRPASPFENTAPARLTSSTATAATSK 134
>3kyh_C MRNA-capping enzyme subunit alpha; 5' modification, triphosphatase,
guanylyltransferase, complex, hydrolase, mRNA
processing, nucleus; 3.00A {Saccharomyces cerevisiae}
Length = 461
Score = 34.8 bits (78), Expect = 0.049
Identities = 12/64 (18%), Positives = 25/64 (39%), Gaps = 3/64 (4%)
Query: 255 WEMFVEDMTMDLLEDICHQVLDLYSQSQQQASQQDS---PPQTQPEPSTKPPPQSHLPPS 311
E + ++++ LE+I + + + + + P Q+Q + P PPS
Sbjct: 387 LESINDSVSLEDLEEIVGDIKRCWDERRANMAGGSGRPLPSQSQNATLSTSKPVHSQPPS 446
Query: 312 KLKP 315
K
Sbjct: 447 NDKE 450
>1dx0_A Prion protein; brain, repeat; NMR {Bos taurus} SCOP: d.6.1.1 PDB:
1dx1_A 1qlx_A 1qlz_A
Length = 219
Score = 34.0 bits (77), Expect = 0.061
Identities = 15/106 (14%), Positives = 22/106 (20%), Gaps = 2/106 (1%)
Query: 280 QSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPP 339
+ P + PPQ + PH G + P
Sbjct: 8 PGGGWNTGGSRYPGQGSPGGNRYPPQGGGGWGQPHGGGWGQPHG--GGWGQPHGGGWGQP 65
Query: 340 PSGHYPNPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQ 385
G + P+ H H AAG+
Sbjct: 66 HGGGWGQPHGGGGWGQGGTHGQWNKPSKPKTNMKHVAGAAAAGAVV 111
Score = 28.3 bits (62), Expect = 3.8
Identities = 9/93 (9%), Positives = 15/93 (16%), Gaps = 7/93 (7%)
Query: 297 EPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYPNPYPAHPVPIP 356
P P +P G +YP + + +
Sbjct: 2 SKKRPKPGGGWNTGGSRYPGQGSPG-------GNRYPPQGGGGWGQPHGGGWGQPHGGGW 54
Query: 357 NIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQT 389
P +G G
Sbjct: 55 GQPHGGGWGQPHGGGWGQPHGGGGWGQGGTHGQ 87
Score = 27.9 bits (61), Expect = 4.8
Identities = 9/104 (8%), Positives = 12/104 (11%)
Query: 286 SQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYP 345
S++ P P P P G P
Sbjct: 2 SKKRPKPGGGWNTGGSRYPGQGSPGGNRYPPQGGGGWGQPHGGGWGQPHGGGWGQPHGGG 61
Query: 346 NPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQT 389
P + P
Sbjct: 62 WGQPHGGGWGQPHGGGGWGQGGTHGQWNKPSKPKTNMKHVAGAA 105
>3tx7_B Nuclear receptor subfamily 5 group A member 2; LRH-1, beta-catenin,
armadillo repeat, nuclear receptor LIGA binding domain,
protein binding; HET: P6L; 2.76A {Homo sapiens}
Length = 352
Score = 33.4 bits (76), Expect = 0.10
Identities = 22/129 (17%), Positives = 40/129 (31%), Gaps = 21/129 (16%)
Query: 286 SQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYP 345
+ + + Q+ SK P A PP+ +
Sbjct: 6 AMSQVIQAMPSDLTISSAIQNIHSASKGLP-----------------LNHAALPPTDYDR 48
Query: 346 NPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQTRSCSTTPLCHSYPGSP 405
+P+ P+ + G Q YGH P A S S + + +SY S
Sbjct: 49 SPFVTSPISMTMPPHGS---LQGYQTYGH-FPSRAIKSEYPDPYTSSPESIMGYSYMDSY 104
Query: 406 ISTTCSTTP 414
+++ ++ P
Sbjct: 105 QTSSPASIP 113
Score = 31.9 bits (72), Expect = 0.33
Identities = 12/86 (13%), Positives = 18/86 (20%)
Query: 279 SQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAP 338
S+ P P P +PP H + ++YP
Sbjct: 31 SKGLPLNHAALPPTDYDRSPFVTSPISMTMPPHGSLQGYQTYGHFPSRAIKSEYPDPYTS 90
Query: 339 PPSGHYPNPYPAHPVPIPNIHPVHAV 364
P Y H +
Sbjct: 91 SPESIMGYSYMDSYQTSSPASIPHLI 116
Score = 31.1 bits (70), Expect = 0.57
Identities = 16/117 (13%), Positives = 28/117 (23%), Gaps = 2/117 (1%)
Query: 277 LYSQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRV 336
L + SP T P T PP S S P P+ +
Sbjct: 36 LNHAALPPTDYDRSPFVTSPISMTMPPHGSLQGYQTYGHFPSRAIKSEYPDPYTSSPESI 95
Query: 337 APPP--SGHYPNPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQTRS 391
+ + + P I + P + A ++ + +
Sbjct: 96 MGYSYMDSYQTSSPASIPHLILELLKCEPDEPQVQAKIMAYLQQEQANRSKHEKLST 152
>3oun_A Putative uncharacterized protein TB39.8; peptidoglycan, Ser/Thr
kinase, pseudokinase, FHA domain, REG phosphorylation;
HET: TPO; 2.71A {Mycobacterium tuberculosis}
Length = 157
Score = 30.6 bits (69), Expect = 0.48
Identities = 13/70 (18%), Positives = 18/70 (25%), Gaps = 5/70 (7%)
Query: 281 SQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPP 340
S Q S P S P + P+ S P G P +
Sbjct: 3 SSQHHHHHSSGLV--PRGSHMPQGGGYAEPA---GRDYDYGQSGAPDYGQPAPGGYSGYG 57
Query: 341 SGHYPNPYPA 350
G Y + +
Sbjct: 58 QGGYGSAGTS 67
Score = 27.2 bits (60), Expect = 6.6
Identities = 7/65 (10%), Positives = 9/65 (13%), Gaps = 4/65 (6%)
Query: 278 YSQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVA 337
+S P+ P P P G
Sbjct: 4 SQHHHHHSSGLVPRGSHMPQGGGYAEPAGRDYD----YGQSGAPDYGQPAPGGYSGYGQG 59
Query: 338 PPPSG 342
S
Sbjct: 60 GYGSA 64
>3nwa_A GB, GB-1, GB1, envelope glycoprotein B; coiled-coil, membrane
fusion, viral P glycoprotein B, HSV-1, membrane; HET:
NAG; 2.26A {Human herpesvirus 1} PDB: 3nwf_A* 3nw8_A*
3nwd_A*
Length = 703
Score = 31.1 bits (70), Expect = 0.83
Identities = 21/109 (19%), Positives = 31/109 (28%), Gaps = 8/109 (7%)
Query: 290 SPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYPNPYP 349
+P + P + PP+ AP P + P+ PP
Sbjct: 10 TPGVAAATQAANGGPATPAPPA----LGAAPTGDPKPKKNKK-PKNPTPPRPAGDNATVA 64
Query: 350 AHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQ-TQTRSCSTTPL 397
A + + +Y PPP + Q Q R C T P
Sbjct: 65 AGHATLREHLRDIKAENTDANFYVC--PPPTGATVVQFEQPRRCPTRPE 111
Score = 30.7 bits (69), Expect = 1.1
Identities = 10/54 (18%), Positives = 14/54 (25%)
Query: 289 DSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSG 342
+P+ T P P + I V PPP+G
Sbjct: 41 KPKKNKKPKNPTPPRPAGDNATVAAGHATLREHLRDIKAENTDANFYVCPPPTG 94
>2wd6_A Agglutinin receptor; cell adhesion, secreted, V-region, cell WALL,
AG I/II protei surface adhesin, peptidoglycan-anchor;
2.30A {Streptococcus gordonii}
Length = 349
Score = 30.5 bits (68), Expect = 1.0
Identities = 12/40 (30%), Positives = 17/40 (42%)
Query: 294 TQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYP 333
T+P T P + L+P VAP + PT + P
Sbjct: 310 TKPVAPTAPTQPMYETEKPLEPAPVAPSYENEPTPPVKTP 349
>3oml_A GH14720P, peroxisomal multifunctional enzyme type 2, CG3415;
rossmann fold, hot-DOG fold, hydratase 2 motif,
peroxisomes, oxidoreductase; 2.15A {Drosophila
melanogaster}
Length = 613
Score = 30.5 bits (69), Expect = 1.2
Identities = 11/64 (17%), Positives = 20/64 (31%), Gaps = 13/64 (20%)
Query: 323 SAIPTLGAQYPQRVAPPPSGHYPNPYPAHPVPIPNIHP---VHAVVPPGSQYYGHHRPPP 379
+AIPT + + + +P + +H G QY P
Sbjct: 360 AAIPTFFV-----LPGLLLQMSTDKLLSKALPNSQVDFSNILH-----GEQYLEIVDDLP 409
Query: 380 AAGS 383
+G+
Sbjct: 410 TSGT 413
>2z6h_A Catenin beta-1, beta-catenin; C-terminal domain, activator,
alternative splicing, cell adhesion, cytoplasm,
cytoskeleton, disease mutation, nucleus; 2.20A {Homo
sapiens}
Length = 644
Score = 30.3 bits (68), Expect = 1.2
Identities = 14/79 (17%), Positives = 19/79 (24%), Gaps = 7/79 (8%)
Query: 274 VLDLYSQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYP 333
LD+ +Q + +QD P + P P GA YP
Sbjct: 560 GLDIGAQGEPLGYRQDDPSYRSFHSGGYGQDALGMDPMMEHEMGGHHP-------GADYP 612
Query: 334 QRVAPPPSGHYPNPYPAHP 352
P P
Sbjct: 613 VDGLPDLGHAQDLMDGLPP 631
>3m5q_A Manganese peroxidase 1; heme, Mn(II)-binding site, Ca(II)-binding
site, glycosylation, ultrahigh resolution, calcium; HET:
NAG MAN HEM; 0.93A {Phanerochaete chrysosporium} PDB:
1mnp_A* 1yyg_A* 1yzp_A* 1yzr_A* 1yyd_A* 3m8m_A* 1mn1_A*
1mn2_A*
Length = 357
Score = 29.9 bits (67), Expect = 1.5
Identities = 12/63 (19%), Positives = 16/63 (25%), Gaps = 4/63 (6%)
Query: 296 PEPSTKPPPQSHLPPSKLKPDL----VAPPHSAIPTLGAQYPQRVAPPPSGHYPNPYPAH 351
P P + P S DL + + T +A P G P
Sbjct: 294 PVPKPATGQPAMFPASTGPQDLELSCPSERFPTLTTQPGASQSLIAHCPDGSMSCPGVQF 353
Query: 352 PVP 354
P
Sbjct: 354 NGP 356
>1llp_A LIP4.15, lignin peroxidase; heme protein, glyco protein,,
oxidoreductase; HET: NAG MAN A2G HEM; 1.70A
{Phanerochaete chrysosporium} SCOP: a.93.1.1 PDB:
1lga_A* 1b80_A* 1b82_A* 1b85_A* 1qpa_A*
Length = 343
Score = 29.5 bits (66), Expect = 2.0
Identities = 13/51 (25%), Positives = 17/51 (33%), Gaps = 3/51 (5%)
Query: 295 QPEPSTKPPPQSHLPPSKLKPDL-VAPPHSAIPTLGAQY--PQRVAPPPSG 342
+P P S PP K D+ A + P+L VA P
Sbjct: 291 LSKPIPGNGPFSFFPPGKSHSDIEQACAETPFPSLVTLPGPATSVARIPPH 341
>3a58_A Exocyst complex component SEC3; protein complex, PH domain, GTPase,
membrane traffic, coiled coil, exocytosis,
phosphoprotein; HET: GNP; 2.60A {Saccharomyces
cerevisiae}
Length = 320
Score = 29.1 bits (64), Expect = 2.6
Identities = 12/82 (14%), Positives = 19/82 (23%)
Query: 302 PPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYPNPYPAHPVPIPNIHPV 361
+P V+P S Q V P N
Sbjct: 239 DERSYQRAVITNRPGSVSPIKSPTSNFTTNTTQSVGSVPFSAPTERTRRSETESVNPVST 298
Query: 362 HAVVPPGSQYYGHHRPPPAAGS 383
A V + ++ P ++ S
Sbjct: 299 PASVEYHAGMKSLNKAPYSSNS 320
Score = 29.1 bits (64), Expect = 2.9
Identities = 11/131 (8%), Positives = 32/131 (24%), Gaps = 13/131 (9%)
Query: 244 WIGRNSKHLRWWEMFV----EDMTMDLLEDICHQVLDLYSQSQQQASQQDSPPQTQPEPS 299
W ++K + + + ++ + L L+ ++ + +
Sbjct: 198 WETNSAKERTVFIKSLITLYIQTFEGHVPELVNWDLSLFYLDERSYQRAVITNRPGSVSP 257
Query: 300 TKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYPNPYPAHPVPIPNIH 359
K P + + ++P R + S + + +
Sbjct: 258 IKSPTSNFTTNT-------TQSVGSVPFSAPTERTRRSETESVNPVSTPASVEYHAGM-- 308
Query: 360 PVHAVVPPGSQ 370
P S
Sbjct: 309 KSLNKAPYSSN 319
Score = 27.6 bits (60), Expect = 8.8
Identities = 9/91 (9%), Positives = 20/91 (21%), Gaps = 2/91 (2%)
Query: 301 KPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYPNPYPAHPVPIPNIHP 360
P + S D + + I +P + VP P
Sbjct: 224 HVPELVNWDLSLFYLDERSYQRAVITNRPGSVSPIKSPTSNFTTNTTQSVGSVPFSA--P 281
Query: 361 VHAVVPPGSQYYGHHRPPPAAGSTQQTQTRS 391
++ P + ++ +
Sbjct: 282 TERTRRSETESVNPVSTPASVEYHAGMKSLN 312
>2fsf_A Preprotein translocase SECA subunit; ATPase, DNA-RNA helicase,
protein translocation, protein transport; 2.00A
{Escherichia coli} PDB: 2fsg_A* 2fsh_A* 2fsi_A* 2vda_A
3bxz_A*
Length = 853
Score = 29.4 bits (67), Expect = 2.7
Identities = 7/52 (13%), Positives = 19/52 (36%), Gaps = 1/52 (1%)
Query: 256 EMFVEDMTMDLLEDICHQVLDLYSQSQQQASQQDSPPQTQPEPSTKPPPQSH 307
MF M L ++ + + + ++ + + + + E + SH
Sbjct: 801 SMF-AAMLESLKYEVISTLSKVQVRMPEEVEELEQQRRMEAERLAQMQQLSH 851
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription,
mRNA, multiprotein complex; HET: UTP; 2.30A
{Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A
1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A*
1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A*
1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Length = 1733
Score = 29.3 bits (65), Expect = 2.7
Identities = 30/127 (23%), Positives = 40/127 (31%), Gaps = 16/127 (12%)
Query: 290 SPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYPNPYP 349
SP + P+ P S+ P S P S PT + P S Y P
Sbjct: 1546 SPTYSPTSPAYSPTSPSYSPTS---PSYSPTSPSYSPTSPSY------SPTSPSYSPTSP 1596
Query: 350 AHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQTRSCSTTPLCHSYPG--SPIS 407
++ P+ P P S Y P + S T T+P SP S
Sbjct: 1597 SYSPTSPSYSPTSPSYSPTSPSYS-----PTSPSYSPTSPSYSPTSPSYSPTSPSYSPTS 1651
Query: 408 TTCSTTP 414
+ S T
Sbjct: 1652 PSYSPTS 1658
Score = 27.8 bits (61), Expect = 9.1
Identities = 20/130 (15%), Positives = 28/130 (21%), Gaps = 15/130 (11%)
Query: 291 PPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYPNPYPA 350
+ P + P PT P A P+ +P
Sbjct: 1509 TAYGGADYGEATSPFGAYGEAPTSPGFGVSSPGFSPTSPTYSPTSPAYSPTSPSYSPTSP 1568
Query: 351 HPVP---------------IPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQTRSCSTT 395
P P+ P P S Y P + S + T +
Sbjct: 1569 SYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSP 1628
Query: 396 PLCHSYPGSP 405
P SP
Sbjct: 1629 TSPSYSPTSP 1638
Score = 27.8 bits (61), Expect = 9.2
Identities = 28/137 (20%), Positives = 38/137 (27%), Gaps = 6/137 (4%)
Query: 279 SQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAP 338
++S + D + P + A A GA +P
Sbjct: 1475 NESGLVNADLDVKDELMFSPLVDSGSNDAMAGG-FTAYGGADYGEATSPFGAYGEAPTSP 1533
Query: 339 PPSGHYPNPYPAHPV---PIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQTRSCSTT 395
P P P P P P S Y P + S + T S S +
Sbjct: 1534 GFGVSSPGFSPTSPTYSPTSPAYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPT-SPSYS 1592
Query: 396 PLCHSY-PGSPISTTCS 411
P SY P SP + S
Sbjct: 1593 PTSPSYSPTSPSYSPTS 1609
Score = 27.8 bits (61), Expect = 10.0
Identities = 29/128 (22%), Positives = 42/128 (32%), Gaps = 10/128 (7%)
Query: 279 SQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAP 338
S S S + P P + P P+ +P +S PT +
Sbjct: 1576 SYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS--PTSPSY------S 1627
Query: 339 PPSGHYPNPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGSTQQTQTRSCSTTPLC 398
P S Y P++ P+ P P S Y P + ++ S S +P
Sbjct: 1628 PTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPAYSPT-SPSYSPTSPSYSPTSPSYSPTS 1686
Query: 399 HSY-PGSP 405
SY P SP
Sbjct: 1687 PSYSPTSP 1694
>3lic_A Sensor protein; PDC fold, ATP-binding, kinase, nucleotide-binding,
phosphopr transferase, transmembrane; 2.30A {Shewanella
oneidensis}
Length = 274
Score = 28.5 bits (63), Expect = 3.5
Identities = 6/29 (20%), Positives = 7/29 (24%)
Query: 40 MPYWYFDKKDIRNSPSFREGIDYETEQRY 68
PY Y +G DY
Sbjct: 91 SPYVYRSGSGFNYLDIGADGYDYTDGNWD 119
>4f6o_A Metacaspase-1; rossmann fold, hydrolase; HET: DFH; 1.68A
{Saccharomyces cerevisiae}
Length = 350
Score = 28.8 bits (63), Expect = 3.8
Identities = 9/47 (19%), Positives = 14/47 (29%)
Query: 280 QSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIP 326
Q++ Q S + P PP LPP + +
Sbjct: 2 QAKAQLSNGYNNPNVNASNMYGPPQNMSLPPPQTQTIQGTDQPYQYS 48
>2hz6_A Endoplasmic reticulum to nucleus signalling 1 isoform 1 variant;
triangular beta-sheet cluster, signaling protein; 3.10A
{Homo sapiens}
Length = 369
Score = 28.5 bits (63), Expect = 4.1
Identities = 15/92 (16%), Positives = 23/92 (25%), Gaps = 4/92 (4%)
Query: 308 LPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYPNPYPAHPVPIP---NIHPVHAV 364
P + V P S +P L V G P+ V
Sbjct: 275 SPSMVHEGVAVVPRGSTLPLLEGPQTDGVTIGDKGESV-ITPSTDVKFDPGLKSKNKLNY 333
Query: 365 VPPGSQYYGHHRPPPAAGSTQQTQTRSCSTTP 396
+ GHH P +A + + +
Sbjct: 334 LRNYWLLIGHHETPLSASTKMLERFPNNLPKH 365
>1ll2_A Glycogenin-1; protein-substrate complex, beta-alpha-beta
rossman-like NUCL binding fold, DXD motif, non-proline
CIS peptide bond, TRAN; HET: UPG; 1.90A {Oryctolagus
cuniculus} SCOP: c.68.1.14 PDB: 1ll3_A 1ll0_A 1zcv_A
1zcu_A 1zdf_A* 1zcy_A 1zdg_A*
Length = 333
Score = 28.4 bits (62), Expect = 4.8
Identities = 11/63 (17%), Positives = 17/63 (26%), Gaps = 1/63 (1%)
Query: 244 WIGRNSKHLRWWEMFVEDMTMDLLEDICHQVLDLYSQSQQQASQQDSPPQTQPEPSTKPP 303
+ WW+ + LL+ Q + S S P+T P
Sbjct: 239 TMTHPQFLNVWWD-IFTTSVVPLLQQFGLVQDTCSYQHVEDVSGAVSHLSLGETPATTQP 297
Query: 304 PQS 306
S
Sbjct: 298 FVS 300
>2rh8_A Anthocyanidin reductase; flavonoids, rossmann fold, short chain
dehydrogenase/reductase, oxidoreductase; 2.22A {Vitis
vinifera} PDB: 3hfs_A
Length = 338
Score = 28.0 bits (63), Expect = 5.6
Identities = 6/43 (13%), Positives = 18/43 (41%), Gaps = 3/43 (6%)
Query: 129 PKKCKDVIKTARMLVDDKKFKTFGDDPREEVMTLERILLQTIK 171
P D +++++ +K G + +E I ++++
Sbjct: 289 PTDFGDFPPKSKLIISSEKLVKEGFSFKY---GIEEIYDESVE 328
>2qdz_A TPSB transporter FHAC; beta barrel, potra domain, membrane, protein
transport; 3.15A {Bordetella pertussis} PDB: 3njt_A
Length = 554
Score = 28.2 bits (62), Expect = 5.8
Identities = 9/53 (16%), Positives = 19/53 (35%), Gaps = 1/53 (1%)
Query: 273 QVLDLYSQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAI 325
+ + + +++ Q+D P + PQS KPD + +
Sbjct: 10 DLNRIDDRQRKEQLQRDIERALTR-PPVELNPQSEAAAPARKPDATSGHTVTV 61
>3ig5_A Glutamate-cysteine ligase; glutathione, ATP-grAsp, ATP-binding,
glutathione biosynthesis, nucleotide-binding,
phosphoprotein; HET: GLU PGE; 2.10A {Saccharomyces
cerevisiae} PDB: 3ig8_A* 3lvv_A* 3lvw_A*
Length = 692
Score = 28.1 bits (62), Expect = 6.5
Identities = 12/84 (14%), Positives = 18/84 (21%), Gaps = 6/84 (7%)
Query: 297 EPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYPN------PYPA 350
++ S PD V H P L A R + P P
Sbjct: 169 NIKDPWNHKNAASRSLFLPDEVINRHVRFPNLTASIRTRRGEKVCMNVPMYKDIATPETD 228
Query: 351 HPVPIPNIHPVHAVVPPGSQYYGH 374
+ + + G
Sbjct: 229 DSIYDRDWFLPEDKEAKLASKPGF 252
>2zrr_A Mundticin KS immunity protein; antiparallel four-helix bundle,
antimicrobial protein; 1.80A {Enterococcus mundtii}
Length = 118
Score = 26.8 bits (59), Expect = 6.6
Identities = 14/44 (31%), Positives = 21/44 (47%)
Query: 152 GDDPREEVMTLERILLQTIKFDLQVDHPYSFLLKYAKSLKGDKT 195
GDD R++ + LL ++ DL + L Y K LK + T
Sbjct: 30 GDDRRKKAEVIITELLDDLEIDLGNESLRKVLGSYLKKLKNEGT 73
>2hwj_A AGR_C_2837P, hypothetical protein ATU1540; structural PSI-2,
protein structure initiative, midwest center for STR
genomics, MCSG; 2.61A {Agrobacterium tumefaciens str}
SCOP: d.268.1.3
Length = 205
Score = 27.6 bits (61), Expect = 7.2
Identities = 7/21 (33%), Positives = 8/21 (38%), Gaps = 3/21 (14%)
Query: 359 HPVHAVVPPGSQYY---GHHR 376
H V V P + Y HH
Sbjct: 51 HIVPVVAGPKDRAYLIDHHHL 71
>2yib_D RNA-directed RNA polymerase; transferase, reverse transcriptase,
IPNV; 3.80A {Infectious pancreatic necrosis virus}
Length = 770
Score = 28.1 bits (61), Expect = 7.3
Identities = 16/89 (17%), Positives = 23/89 (25%), Gaps = 10/89 (11%)
Query: 279 SQSQQQASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAP 338
Q+ Q + + +P P L P L P+
Sbjct: 45 PQAAAQFLKDNKYRILRPRA---IPTMVELETDAALPRLRQMVEDGKLKDTVSVPEGT-- 99
Query: 339 PPSGHYPNPYPAHPVPIPNIHPVHAVVPP 367
+ YP YP H P+ V P
Sbjct: 100 --TAFYPKYYPFH---KPDHDEVGTFGAP 123
>2vg3_A Undecaprenyl pyrophosphate synthetase; transferase, cell WALL
biogenesis/degradation, cell cycle, P transferase; HET:
GPP; 1.8A {Mycobacterium tuberculosis} PDB: 2vg2_A*
2vg4_A
Length = 284
Score = 27.6 bits (62), Expect = 7.6
Identities = 17/63 (26%), Positives = 19/63 (30%), Gaps = 8/63 (12%)
Query: 292 PQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHYPNPYPAH 351
PQ P P P P +V P A P G P R S PA
Sbjct: 2 PQLPPAPDDYP-----TFPDTSTWPVVFPELPAAPYGG---PCRPPQHTSKAAAPRIPAD 53
Query: 352 PVP 354
+P
Sbjct: 54 RLP 56
>2yew_A Capsid protein, coat protein; alphavirus, molecular dynamics; 5.00A
{Barmah forest virus}
Length = 253
Score = 27.3 bits (60), Expect = 8.2
Identities = 14/86 (16%), Positives = 19/86 (22%), Gaps = 7/86 (8%)
Query: 291 PPQT------QPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGHY 344
P QT +P P + PQ P + + + LGA Q
Sbjct: 5 PTQTFYGRRWRPAPVQRYIPQPQPPAPPRRRRGPSQLQQLVAALGALALQPKQKQKRA-Q 63
Query: 345 PNPYPAHPVPIPNIHPVHAVVPPGSQ 370
P P
Sbjct: 64 KKPKKTPPPKPKKTQKPKKPTQKKKS 89
>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase,
wild type, viral protein; 2.38A {Sindbis virus} SCOP:
b.47.1.3 PDB: 1ld4_A 3j0f_A
Length = 264
Score = 27.1 bits (59), Expect = 9.5
Identities = 12/62 (19%), Positives = 19/62 (30%)
Query: 284 QASQQDSPPQTQPEPSTKPPPQSHLPPSKLKPDLVAPPHSAIPTLGAQYPQRVAPPPSGH 343
QA++ +P P K P+ P K KP A G + +
Sbjct: 56 QATRPQNPRPRPPPRQKKQAPKQPPKPKKPKPQEKKKKQPAKTKPGKRQRMALKLEADRL 115
Query: 344 YP 345
+
Sbjct: 116 FD 117
>2kpy_A Major pollen allergen ART V 1; defensin-like, poly-proline; NMR
{Artemisia vulgaris}
Length = 108
Score = 26.3 bits (57), Expect = 10.0
Identities = 16/49 (32%), Positives = 18/49 (36%), Gaps = 7/49 (14%)
Query: 336 VAPPPSGHYPNPYPAHPVPIPNIHPVHAVVPPGSQYYGHHRPPPAAGST 384
+ P G P P A P P P PP G PPPA G +
Sbjct: 53 CSKSPPGATPAPPGAAPPPAAGGSP----SPPA---DGGSPPPPADGGS 94
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
0.320 0.136 0.432
Gapped
Lambda K H
0.267 0.0437 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,588,869
Number of extensions: 395620
Number of successful extensions: 1502
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1199
Number of HSP's successfully gapped: 132
Length of query: 414
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 318
Effective length of database: 4,021,377
Effective search space: 1278797886
Effective search space used: 1278797886
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 58 (26.9 bits)