RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy18165
(259 letters)
>3rj1_C Mediator of RNA polymerase II transcription subun; RNA polymeras
II, POL II, head module, head, regulator, helical
bundle; 4.30A {Saccharomyces cerevisiae}
Length = 223
Score = 58.8 bits (141), Expect = 1e-10
Identities = 24/153 (15%), Positives = 53/153 (34%), Gaps = 17/153 (11%)
Query: 11 SLESVVMKLNEIKSQLVGMLFKIDHDRDSLNWPTFLDNFALLSGQFSAIAKVLSHDKTPP 70
+L++V M+L ++ L + ++ + W T + Q ++ L H +
Sbjct: 32 ALDAVRMRLAQLTHSLRRIRDEMSKA-ELPQWYTLQSQLNVTLSQLVSVTSTLQHFQET- 89
Query: 71 IRNLTVLPLILNPEREEELLRLTEGRVPAFTHDLVPDYLRTKQEPDVEHKLIQLEHKAAS 130
+ + V PL P E L T LR K P+V+ + + +
Sbjct: 90 LDSTVVYPLPKFPTTSHESLVTT--------------LLRKKNIPEVDEWMKYVRETSGV 135
Query: 131 LSYDAAQKQAATFNKVITHVLD-IVSKAREEWE 162
+ ++ + + + + R E+
Sbjct: 136 TTALLKDEEIEKLLQQDREITNWARTTFRNEYG 168
>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 = 48.5 bits (115), Expect = 1e-06
Identities = 41/231 (17%), Positives = 65/231 (28%), Gaps = 74/231 (32%)
Query: 12 LESVVMKLNEIKSQLVGMLFKIDHDRDSL-NWPTFLDNFAL------LSGQFSAIAKV-- 62
++ V K N L SL N N + L G + K
Sbjct: 349 VQDYVNKTNSH-------LPAGKQVEISLVNGA---KNLVVSGPPQSLYGLNLTLRKAKA 398
Query: 63 ---LSHDKTP-----PIRNLTVLPL-------ILNPEREEELLRLTEGRVPAFTHDL-VP 106
L + P + LP+ +L P + L + V D+ +P
Sbjct: 399 PSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIP 458
Query: 107 DY-------LRTKQEPDVEHKLIQLEHKAASLSYDAAQKQAATFNKVITHVLDIVSKARE 159
Y LR + +++ + + + T K TH+LD
Sbjct: 459 VYDTFDGSDLR-VLSGSISERIVDC------IIRLPVKWETTTQFK-ATHILDF------ 504
Query: 160 EWESEAGARGGTGQTSSLTDTHSLVAAVGMGRGLKMIMPG-----PGAPVG 205
G G S L L G G+++I+ G P G
Sbjct: 505 ----------GPGGASGLG---VLTHRNKDGTGVRVIVAGTLDINPDDDYG 542
Score = 43.9 bits (103), Expect = 4e-05
Identities = 46/264 (17%), Positives = 75/264 (28%), Gaps = 99/264 (37%)
Query: 24 SQLVGM---LFKIDHDRDSLNWPTF------LDNFALLSGQFSAIAKVLSHDKTPPIRNL 74
SQ GM L+K DN + FS I ++ ++ P NL
Sbjct: 1626 SQEQGMGMDLYK--------TSKAAQDVWNRADNHFKDTYGFS-ILDIVINN--PV--NL 1672
Query: 75 TVLPLILNPEREEELLRLTEGRVPAFTHDLVPDYLRTKQEP---DVEHKLIQL--EHKAA 129
T+ E+ + R+ E A + + D + K E ++ +
Sbjct: 1673 TIHF---GGEKGK---RIRE-NYSAMIFETIVDG-KLKTEKIFKEINEHSTSYTFRSEKG 1724
Query: 130 SLSYDAAQKQAATFNKVITHV-LDIVSKAR-EEWESE---------AG----------AR 168
LS AT T L ++ KA E+ +S+ AG +
Sbjct: 1725 LLS--------ATQF---TQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASL 1773
Query: 169 GGTGQTSSLTDTHSLVAAVGMGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMG 228
S+ +V RG+ M + P
Sbjct: 1774 ADV---MSIESLVEVVFY----RGMTM------------QVAVPRDEL------------ 1802
Query: 229 PGGQPMGMMGKNPSGIKTNIKAAA 252
G GM+ NP + + A
Sbjct: 1803 -GRSNYGMIAINPGRVAASFSQEA 1825
Score = 33.1 bits (75), Expect = 0.092
Identities = 40/238 (16%), Positives = 67/238 (28%), Gaps = 64/238 (26%)
Query: 3 REE--KQLESSLESVVMKLNEIKSQ--LVG--MLFKIDHDRDSLNWPTF-------LDNF 49
+E+ K L E +E + LVG + + + + F L F
Sbjct: 34 QEQFNKILPEPTEGFAAD-DEPTTPAELVGKFLGY-VSSLVEPSKVGQFDQVLNLCLTEF 91
Query: 50 --ALLSGQ--FSAIAKVLSHDKTPP------IRN----LTVLPLILNPEREEELLR-LTE 94
L G + AK+L + T I+N + + + L R + E
Sbjct: 92 ENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGE 151
Query: 95 GRVPAFTHDL------VPDYLRTKQE------PDVEHKLIQLEHKAASLSYDAAQKQAAT 142
G + DY ++ V LI +A + +
Sbjct: 152 GNAQLVA--IFGGQGNTDDYFEELRDLYQTYHVLVG-DLI---KFSAETLSELI-RTTLD 204
Query: 143 FNKVITHVLDIVSKAREEWESEAGARGGTGQTSS---------LTD-THSLVAAVGMG 190
KV T L+I+ W S + H +V A +G
Sbjct: 205 AEKVFTQGLNILE-----WLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLG 257
>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 = 42.9 bits (100), Expect = 7e-05
Identities = 25/171 (14%), Positives = 56/171 (32%), Gaps = 49/171 (28%)
Query: 4 EEKQLESSLESVV-MKLNEIKSQ----------LVGMLFKIDHDR-DSLNWP-------- 43
+++S L + + ++ + ++ + D NW
Sbjct: 299 TPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWD--NWKHVNCDKLT 356
Query: 44 ----TFLDNF--ALLSGQFSAIAKVLSHD-KTPPIRNLTVLPLI-LNPEREE------EL 89
+ L+ A F ++ V P I +L LI + + + +L
Sbjct: 357 TIIESSLNVLEPAEYRKMFDRLS-VFPPSAHIPTI----LLSLIWFDVIKSDVMVVVNKL 411
Query: 90 LR--LTEGRVPAFT---HDLVPDYLRTKQEPDVE-HKLIQLEHKAASLSYD 134
+ L E + T + + L+ K E + H+ I ++H ++D
Sbjct: 412 HKYSLVEKQPKESTISIPSIYLE-LKVKLENEYALHRSI-VDHYNIPKTFD 460
>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus} PDB: 3lvh_A
Length = 624
Score = 38.4 bits (89), Expect = 0.002
Identities = 9/42 (21%), Positives = 10/42 (23%)
Query: 195 MIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGM 236
P GP + V P P P G M
Sbjct: 583 YGQPQLMLTAGPSVAVPPQAPFGYGYTAPAYGQPQPGFGYSM 624
Score = 35.0 bits (80), Expect = 0.024
Identities = 9/45 (20%), Positives = 11/45 (24%), Gaps = 3/45 (6%)
Query: 198 PGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPS 242
P P +M+ G P P G G P
Sbjct: 578 TQPIVYGQPQLMLTAGPSV---AVPPQAPFGYGYTAPAYGQPQPG 619
>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 = 0.007
Identities = 10/56 (17%), Positives = 13/56 (23%)
Query: 188 GMGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPSG 243
G RG+ P G G + A G PG +
Sbjct: 129 GPVRGVGGPSQQVMTPQGRGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMGRGAP 184
Score = 35.4 bits (81), Expect = 0.012
Identities = 12/54 (22%), Positives = 13/54 (24%)
Query: 188 GMGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNP 241
G G + G PG G P G G P P M
Sbjct: 146 GRGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGPPPGMRPPM 199
Score = 34.6 bits (79), Expect = 0.019
Identities = 9/60 (15%), Positives = 11/60 (18%)
Query: 184 VAAVGMGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPSG 243
V GL + G G P M G + P
Sbjct: 118 VPMPQAPAGLAGPVRGVGGPSQQVMTPQGRGTVAAAAAAATASIAGAPTQYPPGRGGPPP 177
Score = 34.2 bits (78), Expect = 0.024
Identities = 11/50 (22%), Positives = 11/50 (22%)
Query: 187 VGMGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGM 236
VG M G G G P PG P G
Sbjct: 134 VGGPSQQVMTPQGRGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMGRGA 183
Score = 34.2 bits (78), Expect = 0.028
Identities = 14/72 (19%), Positives = 18/72 (25%)
Query: 167 ARGGTGQTSSLTDTHSLVAAVGMGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMP 226
RG G + + + G PG P GR P M
Sbjct: 131 VRGVGGPSQQVMTPQGRGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMG 190
Query: 227 MGPGGQPMGMMG 238
PG +P
Sbjct: 191 PPPGMRPPMGPP 202
Score = 33.9 bits (77), Expect = 0.033
Identities = 13/61 (21%), Positives = 17/61 (27%), Gaps = 3/61 (4%)
Query: 186 AVGMGRGLKMIMPGPGAPVG---PGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPS 242
GRG+ +P P AP G P V G G + P+
Sbjct: 107 GRAAGRGIPAGVPMPQAPAGLAGPVRGVGGPSQQVMTPQGRGTVAAAAAAATASIAGAPT 166
Query: 243 G 243
Sbjct: 167 Q 167
Score = 33.9 bits (77), Expect = 0.035
Identities = 16/75 (21%), Positives = 21/75 (28%)
Query: 169 GGTGQTSSLTDTHSLVAAVGMGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMG 228
G + + + AA G G G P P GP R VG M
Sbjct: 84 GPPPKDTGIARVPLAGAAGGPGIGRAAGRGIPAGVPMPQAPAGLAGPVRGVGGPSQQVMT 143
Query: 229 PGGQPMGMMGKNPSG 243
P G+ +
Sbjct: 144 PQGRGTVAAAAAAAT 158
Score = 33.5 bits (76), Expect = 0.040
Identities = 11/55 (20%), Positives = 11/55 (20%)
Query: 188 GMGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPS 242
GAP P G P MGP MG
Sbjct: 150 VAAAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGPPPGMRPPMGPPMG 204
Score = 33.1 bits (75), Expect = 0.053
Identities = 10/58 (17%), Positives = 12/58 (20%)
Query: 186 AVGMGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPSG 243
V +G + A P GP P M G M
Sbjct: 140 QVMTPQGRGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGPPPGMRP 197
Score = 30.8 bits (69), Expect = 0.31
Identities = 18/60 (30%), Positives = 20/60 (33%), Gaps = 4/60 (6%)
Query: 188 GMGRGLKMIMPGPGAPVGPGM-MVAPGGPGRPVGPGPGMPMG---PGGQPMGMMGKNPSG 243
G GP P+G G GP + P G PMG G PMGM
Sbjct: 163 GAPTQYPPGRGGPPPPMGRGAPPPGMMGPPPGMRPPMGPPMGIPPGRGTPMGMPPPGMRP 222
Score = 30.8 bits (69), Expect = 0.35
Identities = 17/52 (32%), Positives = 17/52 (32%), Gaps = 1/52 (1%)
Query: 188 GMGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPM-GPGGQPMGMMG 238
MGRG P M P G G GMP G P GM G
Sbjct: 178 PMGRGAPPPGMMGPPPGMRPPMGPPMGIPPGRGTPMGMPPPGMRPPPPGMRG 229
Score = 30.8 bits (69), Expect = 0.37
Identities = 15/49 (30%), Positives = 17/49 (34%), Gaps = 1/49 (2%)
Query: 188 GMGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGM 236
PG P M P +GP PGM P G PMG+
Sbjct: 158 TASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGPPPGMR-PPMGPPMGI 205
Score = 28.1 bits (62), Expect = 2.4
Identities = 16/63 (25%), Positives = 22/63 (34%)
Query: 194 KMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPSGIKTNIKAAAA 253
+P GA GPG+ A G P P P G G G+ G + + + A
Sbjct: 92 IARVPLAGAAGGPGIGRAAGRGIPAGVPMPQAPAGLAGPVRGVGGPSQQVMTPQGRGTVA 151
Query: 254 IHP 256
Sbjct: 152 AAA 154
Score = 27.7 bits (61), Expect = 3.4
Identities = 13/48 (27%), Positives = 17/48 (35%)
Query: 197 MPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPSGI 244
M G P + G GPG G G G M + P+G+
Sbjct: 80 MTVEGPPPKDTGIARVPLAGAAGGPGIGRAAGRGIPAGVPMPQAPAGL 127
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 32.1 bits (72), Expect = 0.100
Identities = 14/65 (21%), Positives = 20/65 (30%), Gaps = 30/65 (46%)
Query: 106 PDYLRTKQEPDV-----EHKLIQLEHKAASLSYDAAQKQAATFNKVITHVLDIVSKAREE 160
D R QEP+ E + +L+ DAA K +E
Sbjct: 77 AD--RLTQEPESIRKWREEQRKRLQEL------DAASK-----------------VMEQE 111
Query: 161 WESEA 165
W +A
Sbjct: 112 WREKA 116
>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 = 32.4 bits (73), Expect = 0.11
Identities = 15/54 (27%), Positives = 17/54 (31%), Gaps = 2/54 (3%)
Query: 188 GMGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNP 241
G + P G G PGG P GPG P P P G +
Sbjct: 176 PPGGSSRAAFPQGGRGRGRFPGAVPGGDRFPGPAGPGGP--PPPFPAGQTHHHH 227
Score = 31.6 bits (71), Expect = 0.16
Identities = 12/50 (24%), Positives = 13/50 (26%)
Query: 188 GMGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMM 237
G G+ A G P G P GPGG P
Sbjct: 170 GEGKAGPPGGSSRAAFPQGGRGRGRFPGAVPGGDRFPGPAGPGGPPPPFP 219
Score = 31.6 bits (71), Expect = 0.18
Identities = 9/41 (21%), Positives = 9/41 (21%)
Query: 198 PGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMG 238
GG GR PG P G G
Sbjct: 173 KAGPPGGSSRAAFPQGGRGRGRFPGAVPGGDRFPGPAGPGG 213
Score = 27.0 bits (59), Expect = 6.7
Identities = 15/79 (18%), Positives = 22/79 (27%), Gaps = 1/79 (1%)
Query: 155 SKAREEWESEAGARGGTGQTSSLTDTHSLVAAVGMGRGLKMIMPGPGAPVGPGMMVAPGG 214
++ E +S + G + +G + PGA G P G
Sbjct: 151 FLSQFEMQSRKTTQSGQMSGEGKAGPPGGSSRAAFPQGGRGRGRFPGAVPGGDRFPGPAG 210
Query: 215 PGRPVGPGPGMPMGPGGQP 233
PG P P P
Sbjct: 211 PGGPPPPFPA-GQTHHHHH 228
>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase
activation, cytochrome C, procaspase-9, A nucleotide,
cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A*
3iyt_A* 3iza_A*
Length = 1249
Score = 31.7 bits (72), Expect = 0.27
Identities = 19/92 (20%), Positives = 31/92 (33%), Gaps = 19/92 (20%)
Query: 62 VLSHDKTPPIRNLTVLPLILNPEREEELLRL---------TEGRVPAFT-HDLVPDYLRT 111
+L D P + L VL + E E+ L G+ + HDL D+L
Sbjct: 388 ILQKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLLFCNRNGKSFCYYLHDLQVDFLTE 447
Query: 112 KQEPDVEH---KLIQ------LEHKAASLSYD 134
K ++ K++ H + D
Sbjct: 448 KNRSQLQDLHRKMVTQFQRYYQPHTLSPDQED 479
>1y0f_A Collagen I alpha 1; native, in SITU, triple-helix, supermolecular,
packing structure; 5.16A {Rattus norvegicus} SCOP:
i.25.1.1 PDB: 1ygv_A 3hqv_A 3hr2_A
Length = 1054
Score = 31.6 bits (72), Expect = 0.30
Identities = 13/43 (30%), Positives = 15/43 (34%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G G P PG + G G GP P GP G+
Sbjct: 427 AGEPGKAGERGVPGPPGAVGPAGKDGEAGAQGPPGPAGPAGER 469
Score = 30.1 bits (68), Expect = 0.97
Identities = 12/43 (27%), Positives = 13/43 (30%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G K PG G+ PG G G GP G
Sbjct: 421 PGPKGAAGEPGKAGERGVPGPPGAVGPAGKDGEAGAQGPPGPA 463
Score = 29.7 bits (67), Expect = 1.1
Identities = 12/43 (27%), Positives = 12/43 (27%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G G P G PG PG G P G G
Sbjct: 712 TGFPGAAGRVGPPGPSGNAGPPGPPGPAGKEGSKGPRGETGPA 754
Score = 29.3 bits (66), Expect = 1.4
Identities = 13/44 (29%), Positives = 14/44 (31%)
Query: 190 GRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
RG+ G G A G PG G GP G P
Sbjct: 435 ERGVPGPPGAVGPAGKDGEAGAQGPPGPAGPAGERGEQGPAGSP 478
Score = 29.3 bits (66), Expect = 1.4
Identities = 12/43 (27%), Positives = 13/43 (30%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G G PG G PG P G GP G+
Sbjct: 709 PGATGFPGAAGRVGPPGPSGNAGPPGPPGPAGKEGSKGPRGET 751
Score = 28.9 bits (65), Expect = 1.8
Identities = 15/46 (32%), Positives = 18/46 (39%)
Query: 200 PGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPSGIK 245
PGA PG G PG GP P GP G+ + +G
Sbjct: 709 PGATGFPGAAGRVGPPGPSGNAGPPGPPGPAGKEGSKGPRGETGPA 754
Score = 28.9 bits (65), Expect = 2.1
Identities = 14/43 (32%), Positives = 16/43 (37%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
RG +M PG G G G P PG P G G+
Sbjct: 412 RGQAGVMGFPGPKGAAGEPGKAGERGVPGPPGAVGPAGKDGEA 454
Score = 28.9 bits (65), Expect = 2.2
Identities = 12/34 (35%), Positives = 14/34 (41%)
Query: 200 PGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G+P G +PG GRP G G G P
Sbjct: 349 RGSPGPAGPKGSPGEAGRPGEAGLPGAKGLTGSP 382
Score = 28.5 bits (64), Expect = 2.9
Identities = 15/34 (44%), Positives = 15/34 (44%)
Query: 200 PGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
PGAP G G G PGP P GP G P
Sbjct: 151 PGAPGPAGARGNDGAAGAAGPPGPTGPTGPPGFP 184
Score = 27.8 bits (62), Expect = 4.1
Identities = 13/34 (38%), Positives = 13/34 (38%)
Query: 200 PGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
PG PG A G PG G P G G P
Sbjct: 562 PGLQGMPGERGAAGLPGPKGDRGDAGPKGADGAP 595
Score = 27.8 bits (62), Expect = 4.6
Identities = 14/42 (33%), Positives = 15/42 (35%)
Query: 192 GLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G K G PG + PG PG G GP G P
Sbjct: 743 GSKGPRGETGPAGRPGEVGPPGPPGPAGEKGAPGADGPAGAP 784
Score = 27.8 bits (62), Expect = 5.0
Identities = 13/43 (30%), Positives = 14/43 (32%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G + GA PG G PG P G GP G
Sbjct: 157 AGARGNDGAAGAAGPPGPTGPTGPPGFPGAVGAKGEAGPEGAR 199
Score = 27.4 bits (61), Expect = 5.8
Identities = 11/36 (30%), Positives = 12/36 (33%)
Query: 198 PGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
PG G G G P G P GP G+
Sbjct: 458 GPPGPAGPAGERGEQGPAGSPGFQGLPGPAGPPGEA 493
Score = 27.4 bits (61), Expect = 6.2
Identities = 12/44 (27%), Positives = 14/44 (31%)
Query: 190 GRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G + + PGA G G G P GP G G
Sbjct: 432 KAGERGVPGPPGAVGPAGKDGEAGAQGPPGPAGPAGERGEQGPA 475
Score = 27.4 bits (61), Expect = 6.8
Identities = 11/34 (32%), Positives = 13/34 (38%)
Query: 200 PGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
PG P G + G G G +GP G P
Sbjct: 733 PGPPGPAGKEGSKGPRGETGPAGRPGEVGPPGPP 766
Score = 27.4 bits (61), Expect = 6.9
Identities = 14/39 (35%), Positives = 14/39 (35%), Gaps = 1/39 (2%)
Query: 200 PGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMG 238
G G G PG P PG P G G P G G
Sbjct: 943 RGIKGHRGFSGLQGPPGPPGSPGEQGPSGASG-PAGPRG 980
Score = 27.0 bits (60), Expect = 7.2
Identities = 14/42 (33%), Positives = 15/42 (35%)
Query: 192 GLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G + G PG APG G GP P G G P
Sbjct: 596 GKDGVRGLTGPIGPPGPAGAPGDKGEAGPSGPAGPTGARGAP 637
Score = 27.0 bits (60), Expect = 7.5
Identities = 13/43 (30%), Positives = 14/43 (32%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G K PG G+ G PG PG GP G
Sbjct: 586 AGPKGADGAPGKDGVRGLTGPIGPPGPAGAPGDKGEAGPSGPA 628
Score = 27.0 bits (60), Expect = 8.0
Identities = 11/34 (32%), Positives = 13/34 (38%)
Query: 200 PGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G P G+ G G PGP P G G+
Sbjct: 331 RGFPGADGVAGPKGPAGERGSPGPAGPKGSPGEA 364
Score = 27.0 bits (60), Expect = 9.1
Identities = 13/54 (24%), Positives = 14/54 (25%)
Query: 192 GLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPSGIK 245
G K G G G G GP P G G P+G
Sbjct: 578 GPKGDRGDAGPKGADGAPGKDGVRGLTGPIGPPGPAGAPGDKGEAGPSGPAGPT 631
Score = 26.6 bits (59), Expect = 9.8
Identities = 10/44 (22%), Positives = 10/44 (22%)
Query: 190 GRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G G G G G GP G G P
Sbjct: 441 PPGAVGPAGKDGEAGAQGPPGPAGPAGERGEQGPAGSPGFQGLP 484
>1q3q_A Thermosome alpha subunit; chaperone, chaperonin; HET: ANP; 2.30A
{Thermococcus SP} SCOP: a.129.1.2 c.8.5.2 d.56.1.2 PDB:
1q2v_A* 1q3s_A* 1q3r_A
Length = 548
Score = 31.0 bits (71), Expect = 0.39
Identities = 12/28 (42%), Positives = 14/28 (50%)
Query: 209 MVAPGGPGRPVGPGPGMPMGPGGQPMGM 236
++A G G GMP G GG MGM
Sbjct: 521 VIAAKATKPEGGQGGGMPGGMGGMDMGM 548
>1dx0_A Prion protein; brain, repeat; NMR {Bos taurus} SCOP: d.6.1.1 PDB:
1dx1_A 1qlx_A 1qlz_A
Length = 219
Score = 30.6 bits (68), Expect = 0.41
Identities = 18/60 (30%), Positives = 19/60 (31%), Gaps = 4/60 (6%)
Query: 198 PGPGAPVGPGMMVAPGGPGRPVGPG----PGMPMGPGGQPMGMMGKNPSGIKTNIKAAAA 253
G G P G G GG G P G G PS KTN+K A
Sbjct: 44 GGWGQPHGGGWGQPHGGGWGQPHGGGWGQPHGGGGWGQGGTHGQWNKPSKPKTNMKHVAG 103
Score = 30.2 bits (67), Expect = 0.53
Identities = 18/47 (38%), Positives = 19/47 (40%), Gaps = 1/47 (2%)
Query: 198 PGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPG-GQPMGMMGKNPSG 243
P G GG G+P G G G P G G GQP G P G
Sbjct: 29 RYPPQGGGGWGQPHGGGWGQPHGGGWGQPHGGGWGQPHGGGWGQPHG 75
Score = 28.7 bits (63), Expect = 1.5
Identities = 15/47 (31%), Positives = 16/47 (34%), Gaps = 1/47 (2%)
Query: 198 PGPGAPVGPGMMVAPGGPGR-PVGPGPGMPMGPGGQPMGMMGKNPSG 243
PG G+P G GG P G G G P G G G
Sbjct: 20 PGQGSPGGNRYPPQGGGGWGQPHGGGWGQPHGGGWGQPHGGGWGQPH 66
Score = 27.9 bits (61), Expect = 2.8
Identities = 14/46 (30%), Positives = 14/46 (30%)
Query: 198 PGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPSG 243
P PG G PG P G GQP G P G
Sbjct: 6 PKPGGGWNTGGSRYPGQGSPGGNRYPPQGGGGWGQPHGGGWGQPHG 51
Score = 27.5 bits (60), Expect = 3.4
Identities = 11/46 (23%), Positives = 12/46 (26%)
Query: 198 PGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPSG 243
PG P G G G G G G G+ G
Sbjct: 23 GSPGGNRYPPQGGGGWGQPHGGGWGQPHGGGWGQPHGGGWGQPHGG 68
Score = 26.7 bits (58), Expect = 7.8
Identities = 12/50 (24%), Positives = 14/50 (28%), Gaps = 3/50 (6%)
Query: 198 PGPGAPVGP---GMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPSGI 244
G G P G G G +P P M G G + G
Sbjct: 68 GGWGQPHGGGGWGQGGTHGQWNKPSKPKTNMKHVAGAAAAGAVVGGLGGY 117
Score = 26.3 bits (57), Expect = 8.8
Identities = 8/36 (22%), Positives = 9/36 (25%)
Query: 198 PGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
P G PG+ G P GG
Sbjct: 3 KKRPKPGGGWNTGGSRYPGQGSPGGNRYPPQGGGGW 38
>1dmh_A 1,2-CTD, catechol 1,2-dioxygenase; aromatic hydrocarbon
degradation, alpha/beta FO metalloenzyme, substrate,
oxidoreductase; HET: LIO; 1.70A {Acinetobacter SP} SCOP:
b.3.6.1 PDB: 1dlq_A* 1dlm_A* 1dlt_A*
Length = 311
Score = 30.5 bits (68), Expect = 0.54
Identities = 13/125 (10%), Positives = 31/125 (24%), Gaps = 9/125 (7%)
Query: 124 LEHKAASLSYDAAQKQAATFNKVITHVLDIVSKAR---EEWE------SEAGARGGTGQT 174
L + + ++V++ + + +E+ ++ GA G
Sbjct: 15 LRVASGLEQEGGNPRVKQIIHRVLSDLYKAIEDLNITSDEYWAGVAYLNQLGANQEAGLL 74
Query: 175 SSLTDTHSLVAAVGMGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPM 234
S + + + G + G P P G +
Sbjct: 75 SPGLGFDHYLDMRMDAEDAALGIENATPRTIEGPLYVAGAPESVGYARMDDGSDPNGHTL 134
Query: 235 GMMGK 239
+ G
Sbjct: 135 ILHGT 139
>1g9l_A Polyadenylate-binding protein 1; all-helical domain, RNA binding
protein; NMR {Homo sapiens} SCOP: a.144.1.1 PDB: 1jgn_A
1jh4_A
Length = 144
Score = 29.4 bits (65), Expect = 0.60
Identities = 5/42 (11%), Positives = 6/42 (14%)
Query: 202 APVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPSG 243
P+G P P P
Sbjct: 1 GPLGSAAAATPAVRTVPQYKYAAGVRNPQQHLNAQPQVTMQQ 42
Score = 28.7 bits (63), Expect = 1.2
Identities = 6/45 (13%), Positives = 10/45 (22%)
Query: 197 MPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNP 241
P P A G + + + G+ P
Sbjct: 8 AATPAVRTVPQYKYAAGVRNPQQHLNAQPQVTMQQPAVHVQGQEP 52
>1eys_H Photosynthetic reaction center; membrane protein complex, electron
transport; HET: BGL BCL BPH MQ8 HEM CRT LDA PEF; 2.20A
{Thermochromatium tepidum} SCOP: b.41.1.1 f.23.10.1
Length = 259
Score = 29.9 bits (67), Expect = 0.63
Identities = 16/47 (34%), Positives = 19/47 (40%), Gaps = 9/47 (19%)
Query: 197 MPGPGA---PVGPGMMVAPGGPG------RPVGPGPGMPMGPGGQPM 234
+P P P G +VAP P P PG P+ P G PM
Sbjct: 61 LPDPKTFVLPHNGGTVVAPRVEAPVAVNATPFSPAPGSPLVPNGDPM 107
>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP,
translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A
Length = 504
Score = 29.5 bits (67), Expect = 1.0
Identities = 10/53 (18%), Positives = 15/53 (28%)
Query: 188 GMGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKN 240
+ + + P ++ GG G G GMMG N
Sbjct: 450 VSQSQMAKLNQQMAKMMDPRVLHHMGGMAGLQSMMRQFQQGAAGNMKGMMGFN 502
Score = 29.5 bits (67), Expect = 1.1
Identities = 10/63 (15%), Positives = 15/63 (23%), Gaps = 4/63 (6%)
Query: 187 VGMGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPG--PGMPMGPGGQPM--GMMGKNPS 242
+G +GL M + + P M G Q M
Sbjct: 434 MGGIKGLFKGGDMSKNVSQSQMAKLNQQMAKMMDPRVLHHMGGMAGLQSMMRQFQQGAAG 493
Query: 243 GIK 245
+K
Sbjct: 494 NMK 496
Score = 28.8 bits (65), Expect = 1.9
Identities = 7/57 (12%), Positives = 9/57 (15%), Gaps = 1/57 (1%)
Query: 188 GMGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPG-PGMPMGPGGQPMGMMGKNPSG 243
M + + MM G M G M
Sbjct: 445 DMSKNVSQSQMAKLNQQMAKMMDPRVLHHMGGMAGLQSMMRQFQQGAAGNMKGMMGF 501
Score = 28.4 bits (64), Expect = 2.5
Identities = 7/50 (14%), Positives = 10/50 (20%)
Query: 189 MGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMG 238
+ +K + G G M M M G
Sbjct: 427 FAQMVKKMGGIKGLFKGGDMSKNVSQSQMAKLNQQMAKMMDPRVLHHMGG 476
>1y0f_B Collagen I alpha 2; native, in SITU, triple-helix, supermolecular,
packing structure; 5.16A {Rattus norvegicus} SCOP:
i.25.1.1 PDB: 1ygv_B 3hqv_B 3hr2_B
Length = 1026
Score = 29.7 bits (67), Expect = 1.0
Identities = 10/34 (29%), Positives = 10/34 (29%)
Query: 200 PGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G G G G P G P GP G
Sbjct: 690 AGPAGPRGDAGPTGMTGFPGAAGRTGPPGPSGLT 723
Score = 29.7 bits (67), Expect = 1.2
Identities = 10/34 (29%), Positives = 10/34 (29%)
Query: 200 PGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
GA G G G PG GP G
Sbjct: 687 VGAAGPAGPRGDAGPTGMTGFPGAAGRTGPPGPS 720
Score = 29.3 bits (66), Expect = 1.4
Identities = 12/42 (28%), Positives = 14/42 (33%)
Query: 192 GLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G + G PG G PG GP P G G+
Sbjct: 694 GPRGDAGPTGMTGFPGAAGRTGPPGPSGLTGPPGPPGAAGKE 735
Score = 29.3 bits (66), Expect = 1.4
Identities = 10/43 (23%), Positives = 11/43 (25%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
+G PG G G G G G G P
Sbjct: 675 QGPVGAAGPPGPVGAAGPAGPRGDAGPTGMTGFPGAAGRTGPP 717
Score = 28.9 bits (65), Expect = 1.7
Identities = 11/43 (25%), Positives = 12/43 (27%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G + G G G G GP P G G P
Sbjct: 435 AGARGAPGPDGNNGAQGPPGLQGVQGEKGEQGPAGPPGFQGLP 477
Score = 28.9 bits (65), Expect = 2.1
Identities = 14/55 (25%), Positives = 15/55 (27%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPSGIK 245
G G G G PG GP P G G P GI+
Sbjct: 684 PGPVGAAGPAGPRGDAGPTGMTGFPGAAGRTGPPGPSGLTGPPGPPGAAGKEGIR 738
Score = 28.5 bits (64), Expect = 2.4
Identities = 13/48 (27%), Positives = 14/48 (29%), Gaps = 1/48 (2%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMG 238
+G G G PG G GP GP G G G
Sbjct: 663 KGPVGEQGPVGPQGPVGAAGPPGPVGAAGPAGPRGDAGPTGMT-GFPG 709
Score = 28.5 bits (64), Expect = 2.5
Identities = 13/43 (30%), Positives = 15/43 (34%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G + G G G PG PGP P G G+P
Sbjct: 447 NGAQGPPGLQGVQGEKGEQGPAGPPGFQGLPGPAGPAGEAGKP 489
Score = 28.5 bits (64), Expect = 2.6
Identities = 12/43 (27%), Positives = 13/43 (30%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G PG G G G P G P GP G+
Sbjct: 444 DGNNGAQGPPGLQGVQGEKGEQGPAGPPGFQGLPGPAGPAGEA 486
Score = 28.5 bits (64), Expect = 2.9
Identities = 15/55 (27%), Positives = 18/55 (32%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPSGIK 245
+G GA PG + A G G GP G G PSG+
Sbjct: 669 QGPVGPQGPVGAAGPPGPVGAAGPAGPRGDAGPTGMTGFPGAAGRTGPPGPSGLT 723
Score = 28.1 bits (63), Expect = 3.6
Identities = 9/43 (20%), Positives = 10/43 (23%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G G G G G GP +G G
Sbjct: 726 PGPPGAAGKEGIRGPRGDQGPVGRSGETGATGPTGFVGEKGPT 768
Score = 28.1 bits (63), Expect = 3.9
Identities = 12/43 (27%), Positives = 14/43 (32%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
+G PG G+ A G PG G P G G
Sbjct: 417 KGPTGEPGKPGEKGNVGLAGARGAPGPDGNNGAQGPPGLQGVQ 459
Score = 27.8 bits (62), Expect = 4.2
Identities = 11/43 (25%), Positives = 14/43 (32%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
RG + GA G + + G G P G G G
Sbjct: 507 RGERGPPGERGAAGPTGPIGSRGPSGPPGPDGNKGEAGAVGPA 549
Score = 27.8 bits (62), Expect = 4.5
Identities = 15/43 (34%), Positives = 16/43 (37%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
RGL GAP G + G G GP GP G P
Sbjct: 135 RGLPGERGRVGAPGPAGARGSDGSVGPVGPAGPIGSAGPPGFP 177
Score = 27.8 bits (62), Expect = 5.0
Identities = 12/43 (27%), Positives = 13/43 (30%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G+ G P G G APG G G G G
Sbjct: 558 PGIPGERGVAGVPGGKGEKGAPGLRGDTGATGRDGARGLPGAI 600
Score = 27.4 bits (61), Expect = 5.4
Identities = 14/43 (32%), Positives = 18/43 (41%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G + G G + + G PG P PGP +GP G P
Sbjct: 150 AGARGSDGSVGPVGPAGPIGSAGPPGFPGAPGPKGELGPVGNP 192
Score = 27.4 bits (61), Expect = 5.5
Identities = 17/42 (40%), Positives = 18/42 (42%)
Query: 192 GLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G PG PG+ APG GR PG P G GQP
Sbjct: 820 GPPGARGPPGNVGNPGVNGAPGEAGRDGNPGNDGPPGRDGQP 861
Score = 27.4 bits (61), Expect = 5.5
Identities = 13/43 (30%), Positives = 13/43 (30%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G GA PG G G GP P GP G
Sbjct: 639 VGPSGFAGPAGAAGQPGAKGERGTKGPVGEQGPVGPQGPVGAA 681
Score = 27.4 bits (61), Expect = 5.8
Identities = 10/43 (23%), Positives = 11/43 (25%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G G G G GR G P G G+
Sbjct: 723 TGPPGPPGAAGKEGIRGPRGDQGPVGRSGETGATGPTGFVGEK 765
Score = 27.4 bits (61), Expect = 5.9
Identities = 11/34 (32%), Positives = 11/34 (32%)
Query: 200 PGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
PG PG PG G GP G G
Sbjct: 315 PGLRGNPGSRGLPGADGVAGVMGPAGSRGTSGPA 348
Score = 27.4 bits (61), Expect = 6.3
Identities = 12/48 (25%), Positives = 13/48 (27%), Gaps = 1/48 (2%)
Query: 191 RGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMG 238
G + I G G G G G P G G G G
Sbjct: 732 AGKEGIRGPRGDQGPVGRSGETGATGPTGFVGEKGPTGEPGSA-GPPG 778
Score = 27.0 bits (60), Expect = 7.9
Identities = 12/39 (30%), Positives = 15/39 (38%), Gaps = 1/39 (2%)
Query: 200 PGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMG 238
G P G + G PG+ G P G G G +G
Sbjct: 873 AGPPGAVGPVGPVGEPGKLGNRGEPGPAGAVGPA-GAVG 910
Score = 27.0 bits (60), Expect = 8.0
Identities = 12/34 (35%), Positives = 13/34 (38%)
Query: 200 PGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
PG PG G PG G P+G G P
Sbjct: 789 PGFLGLPGSRGERGLPGVAGSVGEPGPLGIAGPP 822
Score = 27.0 bits (60), Expect = 8.2
Identities = 12/34 (35%), Positives = 14/34 (41%)
Query: 200 PGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
PGA G+M G G G P G G+P
Sbjct: 327 PGADGVAGVMGPAGSRGTSGPAGVRGPNGDSGRP 360
Score = 27.0 bits (60), Expect = 8.6
Identities = 11/34 (32%), Positives = 13/34 (38%)
Query: 200 PGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G PG+ + G PG GP GP G
Sbjct: 798 RGERGLPGVAGSVGEPGPLGIAGPPGARGPPGNV 831
Score = 27.0 bits (60), Expect = 8.9
Identities = 11/42 (26%), Positives = 12/42 (28%)
Query: 192 GLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G G+ G G G P PG P G G
Sbjct: 148 GPAGARGSDGSVGPVGPAGPIGSAGPPGFPGAPGPKGELGPV 189
>1o91_A Collagen alpha 1(VIII) chain; C1Q_LIKE_domain, extracellular
matrix, adhesion, connective tissue, repeat; HET: CPS;
1.9A {Mus musculus} SCOP: b.22.1.1
Length = 178
Score = 28.8 bits (64), Expect = 1.1
Identities = 8/32 (25%), Positives = 9/32 (28%), Gaps = 2/32 (6%)
Query: 212 PGGPGRPVGPGPGMPMGPGGQ--PMGMMGKNP 241
P P M +G G P GK
Sbjct: 9 MPTPSPQGEYLPDMGLGIDGVKTPHAYAGKKG 40
Score = 26.1 bits (57), Expect = 8.5
Identities = 9/39 (23%), Positives = 10/39 (25%), Gaps = 5/39 (12%)
Query: 195 MIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
M P P P G G P G G+
Sbjct: 9 MPTPSPQGEYLP-----DMGLGIDGVKTPHAYAGKKGKH 42
>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 = 28.8 bits (63), Expect = 1.2
Identities = 8/34 (23%), Positives = 16/34 (47%), Gaps = 14/34 (41%)
Query: 2 QREE-KQLESSLESVVMKLNE--------IKSQL 26
+++ K+L++SL KL IK+ +
Sbjct: 18 EKQALKKLQASL-----KLYADDSAPALAIKATM 46
>4dmu_A Collagen III derived triple-helical peptide; dinucleotide binding
fold, collagen binding, platelet activa hemostasis,
plasma, structural protein-protein binding COMP; 2.80A
{Synthetic}
Length = 87
Score = 27.3 bits (61), Expect = 1.6
Identities = 14/36 (38%), Positives = 14/36 (38%), Gaps = 3/36 (8%)
Query: 198 PGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
G P GP PG PG PGP G G P
Sbjct: 19 MGFPGPPGPPXXGPPGPPGP---PGPRGQPGVMGFP 51
>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 = 28.6 bits (63), Expect = 2.3
Identities = 7/55 (12%), Positives = 8/55 (14%)
Query: 189 MGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPSG 243
M K + P G P GQ
Sbjct: 1 MSHHKKRVYPQAQLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPS 55
Score = 28.3 bits (62), Expect = 2.9
Identities = 9/63 (14%), Positives = 14/63 (22%), Gaps = 2/63 (3%)
Query: 198 PGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPM--GMMGKNPSGIKTNIKAAAAIH 255
P + P + QP MG + + A A
Sbjct: 64 PAQEQLHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQ 123
Query: 256 PYS 258
P +
Sbjct: 124 PSA 126
>1rzh_H Reaction center protein H chain; bacterial photosynthesis, proton
TR pathway, revertant, integral membrane protein,
photosynthes; HET: BCL BPH U10 HTO SPO LDA CDL; 1.80A
{Rhodobacter sphaeroides} SCOP: b.41.1.1 f.23.10.1 PDB:
1e14_H* 1f6n_H* 1fnp_H* 1fnq_H* 1jgw_H* 1jgx_H* 1jgy_H*
1jgz_H* 1jh0_H* 1k6l_H* 1k6n_H* 1kby_H* 1l9b_H* 1l9j_H*
1m3x_H* 1mps_H* 1pcr_H* 1e6d_H* 1rg5_H* 1rgn_H* ...
Length = 260
Score = 28.3 bits (63), Expect = 2.5
Identities = 11/39 (28%), Positives = 12/39 (30%), Gaps = 7/39 (17%)
Query: 203 PVGPGMMVAPGG-------PGRPVGPGPGMPMGPGGQPM 234
P G G + PG G P P G PM
Sbjct: 67 PHGRGTLTVPGPESEDRPIALARTAVSEGFPHAPTGDPM 105
>1g8k_A Arsenite oxidase; molybdopterin, [3Fe-4S] cluster, [2Fe-2S] rieske,
oxidoreductase; HET: MGD; 1.64A {Alcaligenes faecalis}
SCOP: b.52.2.2 c.81.1.1 PDB: 1g8j_A*
Length = 825
Score = 28.1 bits (63), Expect = 3.1
Identities = 8/26 (30%), Positives = 8/26 (30%), Gaps = 4/26 (15%)
Query: 213 GGPGRPVGPGPGMPMGPGGQPMGMMG 238
GR G G MG G G
Sbjct: 408 HNVGRR-GTGCV-RMG--GHQEGYTR 429
>3m1x_A Putative endoribonuclease L-PSP; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid, unknown function; HET: FLC; 1.20A {Entamoeba
histolytica} PDB: 3m4s_A 3mqw_A*
Length = 148
Score = 27.2 bits (61), Expect = 3.1
Identities = 9/42 (21%), Positives = 13/42 (30%), Gaps = 7/42 (16%)
Query: 217 RPVGPGPGMPMGPGGQPMGMMGKNPSGIKTNIKAAAAIHPYS 258
+G GPG M + + A A+ YS
Sbjct: 7 HHMGTLEAGQQGPGS----MSKLTV--VASP-LAPEAVGAYS 41
>3k0t_A Endoribonuclease L-PSP, putative; glucose binding, ER stressor,
sugar binding protein; HET: BGC; 2.10A {Pseudomonas
syringae PV}
Length = 143
Score = 27.2 bits (61), Expect = 3.2
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 3/27 (11%)
Query: 232 QPMGMMGKNPSGIKTNIKAAAAIHPYS 258
+ + + GK I ++ KA AAI PYS
Sbjct: 13 EFVDLEGKTV--ITSD-KAPAAIGPYS 36
>1deq_A Fibrinogen (alpha chain); coiled-coil, blood clotting; 3.50A {Bos
taurus} SCOP: i.9.1.1
Length = 390
Score = 27.9 bits (61), Expect = 3.8
Identities = 7/36 (19%), Positives = 9/36 (25%)
Query: 198 PGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQP 233
P PG+ + RP G G
Sbjct: 351 PEPGSAGTWNTGSSGSSSFRPDSSGHGNIRPSSPDW 386
Score = 27.5 bits (60), Expect = 5.4
Identities = 13/50 (26%), Positives = 14/50 (28%), Gaps = 5/50 (10%)
Query: 198 PGPGAPVGPGM----MVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPSG 243
PG P G PG G PG P G G +G
Sbjct: 309 PGRPEPGSAGTWNPGRPEPGSAG-TWNPGRPEPGSAGTWNPGRPEPGSAG 357
Score = 27.1 bits (59), Expect = 6.8
Identities = 13/46 (28%), Positives = 14/46 (30%), Gaps = 2/46 (4%)
Query: 198 PGPGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPSG 243
PG PG PG G PG P G G +G
Sbjct: 288 PGSSGTWNPGR-PEPGSAG-TWNPGRPEPGSAGTWNPGRPEPGSAG 331
>3r0p_A L-PSP putative endoribonuclease; hydrolase; 1.90A {Uncultured
organism}
Length = 127
Score = 26.7 bits (60), Expect = 4.0
Identities = 9/23 (39%), Positives = 11/23 (47%), Gaps = 3/23 (13%)
Query: 236 MMGKNPSGIKTNIKAAAAIHPYS 258
M K I ++ A AAI YS
Sbjct: 1 MTNKAI--IHSD-NAPAAIGTYS 20
>2wjn_H Reaction center protein H chain; bacteriochlorophyll,
lipidic-sponge phase, photosynthesis, R center, electron
transport, cell membrane; HET: HEM FME BCB BPB MPG MQ7
NS5; 1.86A {Rhodopseudomonas viridis} PDB: 1prc_H*
1r2c_H* 1vrn_H* 1dxr_H* 2jbl_H* 2prc_H* 2i5n_H* 2wjm_H*
2x5u_H* 2x5v_H* 3d38_H* 3prc_H* 3t6e_H* 4ac5_H* 5prc_H*
6prc_H* 7prc_H* 3t6d_H* 3g7f_H*
Length = 258
Score = 27.2 bits (60), Expect = 5.3
Identities = 5/20 (25%), Positives = 7/20 (35%)
Query: 215 PGRPVGPGPGMPMGPGGQPM 234
G P+ P G P+
Sbjct: 89 KLAQTDGFEGAPLQPTGNPL 108
>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein,
nuclear protein, neurogenesis, cytosk LIS1 binding,
differentiation; 2.24A {Rattus norvegicus}
Length = 189
Score = 27.0 bits (59), Expect = 5.5
Identities = 7/41 (17%), Positives = 21/41 (51%)
Query: 1 MQREEKQLESSLESVVMKLNEIKSQLVGMLFKIDHDRDSLN 41
Q ++LE+ LE+ +++ + L ++ ++ ++L
Sbjct: 36 FQEGSRELEAELEAQLVQAEQRNRDLQADNQRLKYEVEALK 76
>2klw_A (PKG)10; collagen, synthetic peptide, heterotrimer, de novo
protein; HET: HYP; NMR {Synthetic}
Length = 32
Score = 24.3 bits (53), Expect = 5.6
Identities = 15/30 (50%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 203 PVGPGMMVAPGGPGRPVGP-GPGMPMGPGG 231
P GP P GP P GP GP P GP G
Sbjct: 2 PKGPKGPKGPKGPKGPKGPKGPKGPKGPKG 31
>2klw_B (DOG)10; collagen, synthetic peptide, heterotrimer, de novo
protein; HET: HYP; NMR {Synthetic}
Length = 32
Score = 24.5 bits (53), Expect = 6.1
Identities = 15/28 (53%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 200 PGAPVGPGMMVAPGGPGRPVGPG-PGMP 226
PG P PG PG PG P PG PG P
Sbjct: 3 PGDPGDPGDPGDPGDPGDPGDPGDPGDP 30
>3dmw_A Collagen alpha-1(III) chain; collagen III, cystine knot, triple
helix, glycine, MAD phasing, alternative splicing,
disease mutation; 2.30A {Synthetic}
Length = 42
Score = 24.6 bits (54), Expect = 6.3
Identities = 15/35 (42%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 198 PGPGAPVGP-GMMVAPGGPGRPVGPGPGMPMGPGG 231
PGP G G +PG PG P PGP GP
Sbjct: 6 PGPRGNRGERGSEGSPGHPGMPGPPGPPGAPGPCC 40
>3quw_A Protein MMF1; chorismate mutase fold, intact mitochondria
maintenance, mitochondrial protein, protein binding;
1.75A {Saccharomyces cerevisiae}
Length = 153
Score = 26.5 bits (59), Expect = 6.8
Identities = 7/24 (29%), Positives = 9/24 (37%), Gaps = 3/24 (12%)
Query: 235 GMMGKNPSGIKTNIKAAAAIHPYS 258
G+ P + T A A YS
Sbjct: 25 GITTLTP--VSTK-LAPPAAASYS 45
>3axg_A Endotype 6-aminohexanoat-oligomer hydrolase; nylon oligomer; 2.00A
{Agromyces}
Length = 355
Score = 26.7 bits (58), Expect = 7.4
Identities = 10/49 (20%), Positives = 16/49 (32%), Gaps = 4/49 (8%)
Query: 200 PGAPVGPGMMVAPGGPGRPVGPGPGMPMGPGGQPMGMMGKNPSGIKTNI 248
+ G+ V P P GP + GPG + +G +
Sbjct: 8 ALTDIDGGIAVDP----APRLAGPPVFGGPGNDAFDLAPVRSTGREMLR 52
>1jd1_A Hypothetical 13.9 kDa protein in FCY2-PET117 intergenic region;
translation inhibitor, structural genomics, PSI; 1.70A
{Saccharomyces cerevisiae} SCOP: d.79.1.1
Length = 129
Score = 26.0 bits (58), Expect = 7.6
Identities = 6/23 (26%), Positives = 8/23 (34%), Gaps = 3/23 (13%)
Query: 236 MMGKNPSGIKTNIKAAAAIHPYS 258
+ P + A AA YS
Sbjct: 2 VTTLTP--VICE-SAPAAAASYS 21
>2o8l_A V8 protease, taphylococcal serine; serine protease, enzyme,
hydrolase; 1.50A {Staphylococcus aureus} SCOP: b.47.1.1
PDB: 1qy6_A
Length = 274
Score = 26.7 bits (58), Expect = 7.7
Identities = 8/32 (25%), Positives = 8/32 (25%), Gaps = 1/32 (3%)
Query: 200 PGAPVGPGMMVAPGGPGRPVGPG-PGMPMGPG 230
P P P P P P P P
Sbjct: 236 PNNPDNPNNPDEPNNPDNPNNPDNPDNGDNNN 267
>1ti6_A Pyrogallol hydroxytransferase large subunit; molybdenum binding
enzyme, MGD-cofactors, DMSO-reductase family,
4Fe-4S-cluster; HET: MGD BTT; 2.00A {Pelobacter
acidigallici} SCOP: b.52.2.2 c.81.1.1 PDB: 1ti2_A*
1ti4_A* 1vld_M* 1vle_M* 1vlf_M*
Length = 875
Score = 26.9 bits (59), Expect = 7.9
Identities = 20/129 (15%), Positives = 30/129 (23%), Gaps = 4/129 (3%)
Query: 127 KAASLSYDAAQKQAATFNKVITHV--LDIVSKAREEWESEAGARGGTGQTSSLTDTHSLV 184
L + + + + V +I + AR+ + G S
Sbjct: 304 ADYVLGKTDGTPKTCEWAEEESGVPACEIRALARQWAKKNTYLAAGGLGGWGGACRASHG 363
Query: 185 AAVGMGRGLKMIMPGPGAPVGPGMMVAPGGPGRPVGPGPGMPMG--PGGQPMGMMGKNPS 242
G M G G P G P PG G G G +
Sbjct: 364 IEWARGMIALATMQGMGKPGSNMWSTTQGVPLDYEFYFPGYAEGGISGDCENSAAGFKFA 423
Query: 243 GIKTNIKAA 251
+ K
Sbjct: 424 WRMFDGKTT 432
>1pf5_A Hypothetical protein YJGH; structural genomics, beta barrel, PSI,
protein structure INI midwest center for structural
genomics, MCSG; 2.50A {Escherichia coli} SCOP: d.79.1.1
Length = 131
Score = 26.0 bits (58), Expect = 8.3
Identities = 5/23 (21%), Positives = 8/23 (34%), Gaps = 1/23 (4%)
Query: 236 MMGKNPSGIKTNIKAAAAIHPYS 258
M+ + + A H YS
Sbjct: 1 MVERTAVFPAGR-HSLYAEHRYS 22
>2rop_A Copper-transporting ATPase 2; wilson protein, mobility,
protein-protein interaction, alternative splicing,
ATP-binding, copper transport cytoplasm; NMR {Homo
sapiens}
Length = 202
Score = 26.5 bits (58), Expect = 8.5
Identities = 11/54 (20%), Positives = 19/54 (35%)
Query: 112 KQEPDVEHKLIQLEHKAASLSYDAAQKQAATFNKVITHVLDIVSKAREEWESEA 165
Q V+ + LE+K A + YD + + I + K +E
Sbjct: 43 GQLLGVQSIQVSLENKTAQVKYDPSCTSPVALQRAIEALPPGNFKVSLPDGAEG 96
>2pne_A 6.5 kDa glycine-rich antifreeze protein; chemical protein
synthesis, native chemical ligation; 0.98A {Synthetic}
PDB: 3boi_A 3bog_A* 3bog_C*
Length = 81
Score = 25.0 bits (55), Expect = 8.8
Identities = 14/39 (35%), Positives = 15/39 (38%), Gaps = 2/39 (5%)
Query: 197 MPG-PGAPVGPGMMVAPGGPGRPVGPG-PGMPMGPGGQP 233
G G+ GPG GG G PG G G GG
Sbjct: 16 TAGAAGSVGGPGCDGGHGGNGGNGNPGCAGGVGGAGGAS 54
>3ttc_A HYPF, transcriptional regulatory protein; Zn finger, nucleotide
binding, hydrogenase maturation factor transferase; HET:
ADP; 1.86A {Escherichia coli} PDB: 3tsp_A* 3tsu_A*
3ttf_A* 3ttd_A 3tsq_A
Length = 657
Score = 26.6 bits (59), Expect = 8.9
Identities = 13/71 (18%), Positives = 24/71 (33%), Gaps = 3/71 (4%)
Query: 84 EREEELLRLTEGRVPAFTHDLVPDYLRTK--QEPDVEHKLIQLEHKAASLSYDAAQKQAA 141
E + + HD P Y+ + E ++ + + H A + + A +
Sbjct: 344 EALRLMQNIYNFTPQYVVHDAHPGYVSCQWASEMNLPTQTVLH-HHAHAAACLAEHQWPL 402
Query: 142 TFNKVITHVLD 152
VI LD
Sbjct: 403 DGGDVIALTLD 413
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
0.315 0.134 0.390
Gapped
Lambda K H
0.267 0.0768 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,959,439
Number of extensions: 245935
Number of successful extensions: 1663
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1069
Number of HSP's successfully gapped: 446
Length of query: 259
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 167
Effective length of database: 4,133,061
Effective search space: 690221187
Effective search space used: 690221187
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 56 (25.3 bits)