RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9484
(407 letters)
>2qdj_A Retinoblastoma-associated protein; cyclin fold, cyclin wedge,
antitumor protein; 2.00A {Homo sapiens}
Length = 304
Score = 207 bits (528), Expect = 2e-64
Identities = 65/367 (17%), Positives = 119/367 (32%), Gaps = 87/367 (23%)
Query: 14 QELCMALNIDSTTAKEAWNAYKEMSHHYTLEGS-----QLHWLGCSLYVSCRKATVPTVN 68
LC L I + AW ++++S + G + W C +
Sbjct: 7 TALCQKLKIPDHVRERAWLTWEKVSSVDGVLGGYIQKKKELWGICIFIAAVD-------- 58
Query: 69 SNRTIEGNLVCLTSLLKHCKMSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKVI 128
++ T L K+ ++S+++F N ++ K + ++RL + + V +
Sbjct: 59 ----LDEMSFTFTELQKNIEISVHKFFNLLKEIDTSTK----VDNAMSRLLKKYDVLFAL 110
Query: 129 FTKYLPMFKEMFKPPDLDELLMHVRHNKKKMIHCTSTKVFEFTWILFVLTKAEYLDVSND 188
F+K + ++ + S V + +WI F+L K E L + +D
Sbjct: 111 FSKLERTCELIYLTQP----------SSSISTEINSALVLKVSWITFLLAKGEVLQMEDD 160
Query: 189 LVNSFHLLIATCDLIYANVIQSKLRDIV---------NPDFEGMPSNFLDSHFAPLDDPP 239
LV SF L++ D L++ +P N L++
Sbjct: 161 LVISFQLMLCVLDYFIKLSPPMLLKEPYKTAVIPINGSPRTPRRGQNRSARIAKQLENDT 220
Query: 240 CIISILCKHHDGCKLCVIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDSG 299
II +LCK H+ + D VK++
Sbjct: 221 RIIEVLCKEHEC-------------NIDEVKNVYFK------------------------ 243
Query: 300 QEIPGCEQKLRGNIEDLSAILEPENFDYNFKVVNKMYEEYILSVGDFDERIFLPKFQSFD 359
+ L L N + ++K YEE L D D R+FL ++
Sbjct: 244 --------NFIPFMNSLG--LVTSNGLPEVENLSKRYEEIYLKNKDLDARLFLDHDKTLQ 293
Query: 360 ETAPGSS 366
+ S
Sbjct: 294 TDSIDSF 300
>4elj_A Retinoblastoma-associated protein; cyclin fold, tumor suppressor
protein, phosphorylation, cell; HET: TPO; 2.70A {Homo
sapiens}
Length = 656
Score = 196 bits (499), Expect = 7e-57
Identities = 61/347 (17%), Positives = 111/347 (31%), Gaps = 92/347 (26%)
Query: 13 HQELCMALNIDSTTAKEAWNAYKEMSHHYTLEGSQL-----HWLGCSLYVSCRKATVPTV 67
LC L I + AW ++++S + G + W C +
Sbjct: 8 FTALCQKLKIPDHVRERAWLTWEKVSSVDGVLGGYIQKKKELWGICIFIAAVD------- 60
Query: 68 NSNRTIEGNLVCLTSLLKHCKMSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKV 127
++ T L K+ ++S+++F N ++ K + ++RL + + V
Sbjct: 61 -----LDEMSFTFTELQKNIEISVHKFFNLLKEIDTSTK----VDNAMSRLLKKYDVLFA 111
Query: 128 IFTKYLPMFKEMFKPPDLDELLMHVRHNKKKMIHCTSTKVFEFTWILFVLTKAEYLDVSN 187
+F+K + ++ + S V + +WI F+L K E L + +
Sbjct: 112 LFSKLERTCELIYLTQP----------SSSISTEINSALVLKVSWITFLLAKGEVLQMED 161
Query: 188 DLVNSFHLLIATCDLIYANVIQSKLRDIVNPDFEGMPSNFLDSHFAPLDDPPCIISILCK 247
DLV SF L++ D L++ A +++ II +LCK
Sbjct: 162 DLVISFQLMLCVLDYFIKLSPPMLLKE--------------PYKTAVIENDTRIIEVLCK 207
Query: 248 HHDGCKLCVIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDSGQEIPGCEQ 307
H+ V N+ +
Sbjct: 208 EHECNIDEV------------------------------------ANV---------AFK 222
Query: 308 KLRGNIEDLSAILEPENFDYNFKVVNKMYEEYILSVGDFDERIFLPK 354
+ L L N + ++K YEE L D D R+FL
Sbjct: 223 NFIPFMNSLG--LVTSNGLPEVENLSKRYEEIYLKNKDLDARLFLDH 267
Score = 63.6 bits (154), Expect = 5e-11
Identities = 18/51 (35%), Positives = 34/51 (66%)
Query: 256 VIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDSGQEIPGCE 306
++AE +L+R+++KHL E ++++SLAW+S+SPL+ I+ S +
Sbjct: 462 SFIKAEGNLTREMIKHLERCEHRIMESLAWLSDSPLFDLIKQSKDREGPLK 512
>4ell_A Retinoblastoma-associated protein; cyclin fold, tumor suppressor,
cell cycle; 1.98A {Homo sapiens}
Length = 411
Score = 65.2 bits (158), Expect = 1e-11
Identities = 17/52 (32%), Positives = 33/52 (63%)
Query: 256 VIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDSGQEIPGCEQ 307
++AE +L+R+++KHL E ++++S AW+S+SPL+ I+ S +
Sbjct: 158 SFIKAEGNLTREMIKHLERCEHRIMESFAWLSDSPLFDLIKQSKDREGPTDH 209
Score = 27.8 bits (61), Expect = 7.4
Identities = 9/51 (17%), Positives = 18/51 (35%), Gaps = 4/51 (7%)
Query: 14 QELCMALNIDSTTAKE-AWNAYKEMSHHYT--LEGSQL-HWLGCSLYVSCR 60
LC L + + W ++ + + L + CS+Y C+
Sbjct: 287 NTLCERLLSEHPELEHIIWTLFQHTLQNEYELMRDRHLDQIMMCSMYGICK 337
>2r7g_A PP110, retinoblastoma-associated protein, P105-RB, RB;
retinoblastoma protein, E2F displacement, transcription
repressor; 1.67A {Homo sapiens} SCOP: a.74.1.3 a.74.1.3
PDB: 1n4m_A 3pom_A 1gh6_B 1gux_A 1o9k_A 1ad6_A 1gux_B
1o9k_B
Length = 347
Score = 57.4 bits (138), Expect = 2e-09
Identities = 18/46 (39%), Positives = 33/46 (71%)
Query: 256 VIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDSGQE 301
++AE +L+R+++KHL E ++++SLAW+S+SPL+ I+ S
Sbjct: 155 SFIKAEGNLTREMIKHLERCEHRIMESLAWLSDSPLFDLIKQSKDR 200
Score = 27.7 bits (61), Expect = 7.3
Identities = 9/51 (17%), Positives = 18/51 (35%), Gaps = 4/51 (7%)
Query: 14 QELCMALNIDSTTAKE-AWNAYKEMSHHYT--LEGSQL-HWLGCSLYVSCR 60
LC L + + W ++ + + L + CS+Y C+
Sbjct: 223 NTLCERLLSEHPELEHIIWTLFQHTLQNEYELMRDRHLDQIMMCSMYGICK 273
>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 = 52.9 bits (126), Expect = 1e-07
Identities = 70/388 (18%), Positives = 118/388 (30%), Gaps = 111/388 (28%)
Query: 12 QHQELCMALNI-DSTTAKEAWNAYKEMSHHYTLEGSQLHWLGCSLYVSCRKATVPT-VNS 69
+ + L + + +AWNA+ L C + ++ R V +++
Sbjct: 239 KSKPYENCLLVLLNVQNAKAWNAFN---------------LSCKILLTTRFKQVTDFLSA 283
Query: 70 NRTIEGNLVCLTSLLKHCKMSLNQFLNKCRKWADMR--KLPDSFRSKIARLERNFAVSKV 127
T +L + L + + L K+ D R LP +S
Sbjct: 284 ATTTHISLDHHSMTLTPDE-VKSLLL----KYLDCRPQDLPRE-----VLTTNPRRLS-- 331
Query: 128 IFTKYLPMFKEMFKP-PDLDELLMHVRHNKKKMIHCTSTKVFEFTWILFVLTKAEYLDVS 186
+ E + + HV +K I +S L VL AEY +
Sbjct: 332 -------IIAESIRDGLATWDNWKHVNCDKLTTIIESS---------LNVLEPAEYRKMF 375
Query: 187 NDLV---NSFHLLIATCDLIYANVIQSKLRDIVNPDFEGMPSNFLDSHFAPLDDPPCIIS 243
+ L S H+ LI+ +VI+S + +VN IS
Sbjct: 376 DRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVN--------KLHKYSLVEKQPKESTIS 427
Query: 244 ILCKHHDG-CKLCVIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDS---- 298
I +L V + E +L R IV H N+ + D L D
Sbjct: 428 I----PSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLI--------PPYLDQYFYS 475
Query: 299 --GQEIPGCEQKLRGNIEDLSAILEPENFDYNF---KVVN------------------KM 335
G + E R + + D+ F K+ + K
Sbjct: 476 HIGHHLKNIEHPER--MTLFRMVF----LDFRFLEQKIRHDSTAWNASGSILNTLQQLKF 529
Query: 336 YEEYIL-SVGDFDERI-----FLPKFQS 357
Y+ YI + ++ + FLPK +
Sbjct: 530 YKPYICDNDPKYERLVNAILDFLPKIEE 557
Score = 36.4 bits (83), Expect = 0.018
Identities = 26/167 (15%), Positives = 51/167 (30%), Gaps = 39/167 (23%)
Query: 87 CKMSLNQFLNKC--RKWADMRK--LPDSFRSKIARLERNFAVSKVIFTKYLPM---FKEM 139
+ +N+ K +P + +LE +A+ + I Y +
Sbjct: 404 VMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDD 463
Query: 140 FKPPDLDE-LLMHVRHNKKKMIHCTSTKVFE-----FTWI--------LFVLTKAEYLDV 185
PP LD+ H+ H+ K + H +F F ++ L+
Sbjct: 464 LIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNT 523
Query: 186 SNDLV----------NSFHLLIATCDLIY------ANVIQSKLRDIV 216
L + L+ ++ N+I SK D++
Sbjct: 524 LQQLKFYKPYICDNDPKYERLV--NAILDFLPKIEENLICSKYTDLL 568
Score = 35.2 bits (80), Expect = 0.039
Identities = 39/302 (12%), Positives = 88/302 (29%), Gaps = 83/302 (27%)
Query: 86 HCKMSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKVIFTKYLPMFKEMFKPPDL 145
K L+ F + D + + D +S +++ E + D
Sbjct: 17 QYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEE----------------IDHIIMSKDA 60
Query: 146 DE----LLMHVRHNKKKMIHCTSTKVF-------EFTWILFVLTKAEYLDVSNDLVNSFH 194
L + +++M+ + F + +++ + K E S
Sbjct: 61 VSGTLRLFWTLLSKQEEMV-----QKFVEEVLRINYKFLMSPI-KTEQRQPSMMTR---- 110
Query: 195 LLIATCDLIYANVIQSKLRDIVNPDFEGMPSNFLDSHFAPLDDPPCIISILCKHH--DGC 252
+ I D +Y + ++ P L L ++ G
Sbjct: 111 MYIEQRDRLYNDNQVFAKYNVSRLQ----PYLKLRQALLELRPAKNVLI-----DGVLGS 161
Query: 253 -KLCVIVRAEASLSRDIVKHLNLTEEQVLDSLAWVS----NSP---------LWKNIEDS 298
K V + LS + ++ + W++ NSP L I+ +
Sbjct: 162 GKTWVA--LDVCLSYKVQCKMD-------FKIFWLNLKNCNSPETVLEMLQKLLYQIDPN 212
Query: 299 GQEIPGCEQKLRGNIEDLSAILEPENFDYNFKVVNKMYEEYILSVGD-FDERIFLPKFQS 357
++ I + A L + +K YE +L + + + + + +
Sbjct: 213 WTSRSDHSSNIKLRIHSIQAEL-------RRLLKSKPYENCLLVLLNVQNAKA----WNA 261
Query: 358 FD 359
F+
Sbjct: 262 FN 263
>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 = 46.2 bits (109), Expect = 2e-05
Identities = 83/490 (16%), Positives = 152/490 (31%), Gaps = 143/490 (29%)
Query: 5 ADNETAHQHQELCMA-LN-IDSTTAKEAWNAYKEM--------SHHYTLEGSQLHWLGCS 54
AD+E EL L + S + ++ + Y LEG+ +H L
Sbjct: 50 ADDEPTTP-AELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCY-LEGNDIHALAAK 107
Query: 55 LY------VSCRKATVPT-----VNSNRTIEGNLVCLTSLLKHCKMSLNQFL-------N 96
L + K + + + R + ++L + Q + N
Sbjct: 108 LLQENDTTLVKTKELIKNYITARIMAKRPFDKKSN--SALFRAVGEGNAQLVAIFGGQGN 165
Query: 97 KCRKWADMRKLPDSFRSKIA-----------RLERNFAVSKVIFTKYLPMFKEMFKP--- 142
+ ++R L ++ + L R ++ +FT+ L + + + P
Sbjct: 166 TDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNT 225
Query: 143 PDLDELLMHVRHNKKKMIHCTSTKVFEFTWILFVLTK-AEYLDVSN-------DLVNSFH 194
PD D LL + L + + A Y+ + +L +
Sbjct: 226 PDKDYLL-----------SIP------ISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLK 268
Query: 195 -LLIATCDLIYANVI-QSKLRDIVNPDFEGMPSNFLD--------SH--FAPLDDPPCII 242
+ L+ A I ++ + F + + + PP I+
Sbjct: 269 GATGHSQGLVTAVAIAETDSWE----SFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSIL 324
Query: 243 SILCKHHDGCK---LCVIVRAEASLSRDIV-KHLNLT------EEQVLDSLAWVSNSPLW 292
++++G L + +L+++ V ++N T +QV SL N
Sbjct: 325 EDSLENNEGVPSPMLSIS-----NLTQEQVQDYVNKTNSHLPAGKQVEISLV---NGA-- 374
Query: 293 KNIEDSGQEIPGCEQKLRGNIEDLSAILEPENFDYNFKVVNKMYEEYILSVGDFDERIFL 352
KN+ SG P Q L G L P D + ++ F ER
Sbjct: 375 KNLVVSGP--P---QSLYGLNLTLRKAKAPSGLDQS-RIP-------------FSERK-- 413
Query: 353 PKFQ-SFDE-TAP-------GSSGPGLDDLSPAPAPGGAP----PEVDF--GIDFTSFRR 397
KF F +P +S DL A P D G D
Sbjct: 414 LKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSG 473
Query: 398 NLRQKLVPCI 407
++ +++V CI
Sbjct: 474 SISERIVDCI 483
Score = 31.9 bits (72), Expect = 0.42
Identities = 62/389 (15%), Positives = 116/389 (29%), Gaps = 137/389 (35%)
Query: 47 QLHWLGCSLYVSCRKATVPTVNSNRTIEGNLVCLTSLLKHCKMSLNQFLNKCRKWADMRK 106
QL V+ + ++G L+ ++ + + W
Sbjct: 245 QL----AHYVVTAKLLGFTPGELRSYLKGATGHSQGLV----TAV--AIAETDSWESFFV 294
Query: 107 LPDS-----F----RSKIARLERNFAVSKVIFTKYL--------PMFKEMFKPPDLDELL 149
F R A N ++ I L PM +++
Sbjct: 295 SVRKAITVLFFIGVRCYEAY--PNTSLPPSILEDSLENNEGVPSPMLS--ISNLTQEQVQ 350
Query: 150 MHVRH-NKKKMIHCTSTKVFEFTWILFVLTKAEYLDVSNDLVNSF-HLLIA--TCDLIYA 205
+V N L + +++S LVN +L+++ L Y
Sbjct: 351 DYVNKTNSH-------------------LPAGKQVEIS--LVNGAKNLVVSGPPQSL-YG 388
Query: 206 NVIQSKLRDIVNPD--------FEGMPSNFLDSHFAPLDDPPCIISILCKHHDGCKLCVI 257
+ LR P F F + F P+ P H L +
Sbjct: 389 --LNLTLRKAKAPSGLDQSRIPFSERKLKF-SNRFLPVASP---------FH--SHL--L 432
Query: 258 VRAEASLSRDIVKHLNLTEEQVLDSLAWVSNS---PLWKNIEDSGQEIPGCEQKLRGNI- 313
V A +++D+VK +++++ + P++ + D G ++ + L G+I
Sbjct: 433 VPASDLINKDLVK----------NNVSFNAKDIQIPVY-DTFD-GSDL----RVLSGSIS 476
Query: 314 EDL-SAIL-EPENFDYNFKVVNKMYEEYILSVGDFDERIFLPKFQSFDETAPGSSGPGLD 371
E + I+ P ++ + +IL DF PG + GL
Sbjct: 477 ERIVDCIIRLPVKWE----TTTQFKATHIL---DFG---------------PGGA-SGLG 513
Query: 372 DLSPAPAPG-GA----------PPEVDFG 389
L+ G G P+ D+G
Sbjct: 514 VLTHRNKDGTGVRVIVAGTLDINPDDDYG 542
Score = 31.9 bits (72), Expect = 0.49
Identities = 54/352 (15%), Positives = 102/352 (28%), Gaps = 138/352 (39%)
Query: 12 QHQELCMALNIDSTTAKEAWNAYKEMSHHYTLEGSQLHWLGCSLYVSCRKATVPTVNSNR 71
Q Q + M L S A++ WN +H+ G S+ + V +N
Sbjct: 1627 QEQGMGMDLYKTSKAAQDVWN---RADNHFKDT------YGFSI--------LDIVINNP 1669
Query: 72 TIEGNLVCLTSLLKHCKMSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKVIFTK 131
NL K ++ N D + + E+ F T
Sbjct: 1670 V---NLTIHFGGEKGKRIRENYSAMIFETIVDGK----------LKTEKIFKEINEHSTS 1716
Query: 132 YLPMFKEMFKPPDLDELLMHVRHNKKKMIHCTSTKVFEFTWI-LFVLTKAEYLDV-SNDL 189
Y F+ LL ++T +FT L ++ KA + D+ S L
Sbjct: 1717 Y------TFRSE--KGLL-------------SAT---QFTQPALTLMEKAAFEDLKSKGL 1752
Query: 190 VNS---F--H-L-----LIATCDLIYANVIQSKLRDIVNPDFEGMPSNFLDSHFAPLDDP 238
+ + F H L L + A+V+ E
Sbjct: 1753 IPADATFAGHSLGEYAALAS-----LADVM----------SIE----------------- 1780
Query: 239 PCIISILCKHHDGCKLCVIVRAEASLSRDIVKHLNLTEEQVLDSLAWVSNSPLWKNIEDS 298
++ V R ++ +E + ++ +P
Sbjct: 1781 -----------SLVEV-VFYRGMT------MQVAVPRDELGRSNYGMIAINP-------- 1814
Query: 299 GQEIPG-CEQKLRGNIEDLSA----ILEPENFDYNFKVVNKMYEEYILSVGD 345
G+ ++ L+ +E + ++E N+ N ++Y+ + GD
Sbjct: 1815 GRVAASFSQEALQYVVERVGKRTGWLVEIVNY-------NVENQQYVAA-GD 1858
>1c9b_A General transcription factor IIB; protein-DNA complex,
cyclin-like fold, helix-turn-helix, transcription/DNA
complex; 2.65A {Homo sapiens} SCOP: a.74.1.2 a.74.1.2
PDB: 1tfb_A 2phg_A 1vol_A*
Length = 207
Score = 35.8 bits (82), Expect = 0.012
Identities = 11/53 (20%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 14 QELCMALNIDSTTAKEAWNAYKEMSHHYTLEG-SQLHWLGCSLYVSCRKATVP 65
+ +N+ N +K++ +L+G + LY++CR+ VP
Sbjct: 13 TTMADRINLPRNIVDRTNNLFKQVYEQKSLKGRANDAIASACLYIACRQEGVP 65
>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 = 34.6 bits (79), Expect = 0.028
Identities = 12/53 (22%), Positives = 20/53 (37%), Gaps = 1/53 (1%)
Query: 14 QELCMALNIDSTTAKEAWNAYKEMSHHYTLEG-SQLHWLGCSLYVSCRKATVP 65
+ L + +EA Y+E + G S + +Y +CR VP
Sbjct: 17 DRITAQLKLPRHVEEEAARLYREAVRKGLIRGRSIESVMAACVYAACRLLKVP 69
>1mty_G Methane monooxygenase hydroxylase; dinuclear iron center
monooxygenase; 1.70A {Methylococcus capsulatus str}
SCOP: a.23.3.1 PDB: 1mmo_G 1xmg_E 1xmf_E 1xmh_E 1xvb_E
1fyz_E 1fz0_E 1fz2_E 1fz3_E 1fz4_E 1fz5_E 1fz6_E 1fz7_E
1fz8_E 1fz9_E 1fzh_E 1fzi_E 1xu3_E 1xu5_E 1fz1_E ...
Length = 162
Score = 32.4 bits (73), Expect = 0.14
Identities = 15/71 (21%), Positives = 29/71 (40%), Gaps = 5/71 (7%)
Query: 73 IEGNLVCLTSLLKHCKMSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKVIFTKY 132
IE L ++LK + F +K D + + D +K+ + + K+
Sbjct: 53 IEAKLEEKVAVLKARAFNEVDFRHKTAFGEDAKSVLDGTVAKMNAAKDKWEAEKIHIG-- 110
Query: 133 LPMFKEMFKPP 143
F++ +KPP
Sbjct: 111 ---FRQAYKPP 118
>1mhy_G Methane monooxygenase hydroxylase; oxidoreductase, NADP, one-carbon
metabolism; 2.00A {Methylosinus trichosporium} SCOP:
a.23.3.1 PDB: 1mhz_G
Length = 169
Score = 32.1 bits (72), Expect = 0.20
Identities = 14/71 (19%), Positives = 30/71 (42%), Gaps = 5/71 (7%)
Query: 73 IEGNLVCLTSLLKHCKMSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKVIFTKY 132
IE + S+LK K+ + + K D + ++ +KI + + +
Sbjct: 57 IERKIEEKLSVLKTEKLPVADLITKATTGEDAAAVEATWIAKIKAAKSKYEAEAIHIE-- 114
Query: 133 LPMFKEMFKPP 143
F++++KPP
Sbjct: 115 ---FRQLYKPP 122
>3ecm_A High affinity CAMP-specific and IBMX-insensitive 3',5'-cyclic
phosphodiesterase 8A...; phosphodiesterase 8A PDE8A
inhibitor selectivity; 1.90A {Homo sapiens} PDB: 3ecn_A*
Length = 338
Score = 28.6 bits (64), Expect = 3.5
Identities = 12/44 (27%), Positives = 19/44 (43%), Gaps = 2/44 (4%)
Query: 117 RLERNFAVSKVIFTKY--LPMFKEMFKPPDLDELLMHVRHNKKK 158
R + S++ F Y MF DL +L+ H+ +N K
Sbjct: 288 RNTCSIPKSQISFIDYFITDMFDAWDAFVDLPDLMQHLDNNFKY 331
>3vcz_A Endoribonuclease L-PSP; virulence, pathogenesis, infectious
diseases, center for STR genomics of infectious
diseases, csgid, translation; HET: GOL; 1.80A {Vibrio
vulnificus}
Length = 153
Score = 28.0 bits (63), Expect = 3.6
Identities = 15/81 (18%), Positives = 25/81 (30%), Gaps = 31/81 (38%)
Query: 298 SGQEIPGCEQ--KLRGNIED--------LSAILEPENFDY--------------NFKVVN 333
SGQ IP ++ +I + A++E +F VN
Sbjct: 54 SGQ-IPVNPATGEVPADIAAQARQSLDNVKAVVEASGLTVGDIVKMTVFVKDLNDFGTVN 112
Query: 334 KMYEEYILSVGDFDERIFLPK 354
++Y + FDE
Sbjct: 113 EVYGNF------FDEHNVAHY 127
>1qsd_A Protein (beta-tubulin binding post-chaperonin cofactor);
four-helix-bundle, chaperone; 2.20A {Saccharomyces
cerevisiae} SCOP: a.7.5.1
Length = 106
Score = 27.1 bits (60), Expect = 3.9
Identities = 8/32 (25%), Positives = 16/32 (50%)
Query: 295 IEDSGQEIPGCEQKLRGNIEDLSAILEPENFD 326
++D+ + +P +K+R EDL L+
Sbjct: 55 LDDTKRLLPTLYEKIREFKEDLEQFLKTYQGT 86
>1h7c_A Tubulin-specific chaperone A; protein folding, cofactor A; 1.8A
{Homo sapiens} SCOP: a.7.5.1
Length = 108
Score = 27.1 bits (60), Expect = 4.4
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 295 IEDSGQEIPGCEQKLRGNIEDLSAILEPEN 324
+++S IP C+++L DL ILE E
Sbjct: 57 LQESRMMIPDCQRRLEAAYLDLQRILENEK 86
>1uaa_A REP helicase, protein (ATP-dependent DNA helicase REP.); complex
(helicase/DNA), DNA unwinding, hydrolase/DNA complex;
HET: DNA; 3.00A {Escherichia coli} SCOP: c.37.1.19
c.37.1.19
Length = 673
Score = 28.7 bits (65), Expect = 4.5
Identities = 24/139 (17%), Positives = 43/139 (30%), Gaps = 58/139 (41%)
Query: 254 LCV-IVRAEA------------------SLSRDIVKHLNLTEEQVLDSLAW-VSNSPLWK 293
L + I++ E +L +++ + L ++ +L L +SN WK
Sbjct: 87 LGLDIIKREYAALGMKANFSLFDDTDQLALLKELTEGLIEDDKVLLQQLISTISN---WK 143
Query: 294 NIEDSGQEIPGCEQKLRGNIEDLSAILEPENF-----DYNFKVVNKMYEEY-----ILSV 343
N + P ++ Y Y +V
Sbjct: 144 N-----------------------DLKTPSQAAASAIGERDRIFAHCYGLYDAHLKACNV 180
Query: 344 GDFDERIFLPK--FQSFDE 360
DFD+ I LP Q+ +E
Sbjct: 181 LDFDDLILLPTLLLQANEE 199
>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 = 27.6 bits (60), Expect = 4.5
Identities = 8/32 (25%), Positives = 12/32 (37%), Gaps = 9/32 (28%)
Query: 43 LEGSQLHWLGCSLYVSCRKATVPTVNSNRTIE 74
L+ S L LY + P + T+E
Sbjct: 25 LQAS----L--KLYAD---DSAPALAIKATME 47
>3ceg_A Baculoviral IAP repeat-containing protein 6; apoptosis, ligase,
protease inhibitor, thiol protease inhibitor, UBL
conjugation pathway; HET: MSE; 2.01A {Homo sapiens}
Length = 323
Score = 28.1 bits (62), Expect = 4.7
Identities = 10/63 (15%), Positives = 22/63 (34%)
Query: 85 KHCKMSLNQFLNKCRKWADMRKLPDSFRSKIARLERNFAVSKVIFTKYLPMFKEMFKPPD 144
KH + + + +C +W + S + + + A K + ++ P
Sbjct: 260 KHFYLKRVEIMAQCEEWIADIQQYSSDKRVGRTMSHHAAALKRHTAQLREELLKLPCPEG 319
Query: 145 LDE 147
LD
Sbjct: 320 LDP 322
>3l4c_A Dedicator of cytokinesis protein 1; DOCK180, DOCK1,
phosphoinositide specificity, guanine exchan factor, RHO
GTPase, cytoskeleton, cell migration; 2.37A {Homo
sapiens}
Length = 220
Score = 28.0 bits (62), Expect = 5.3
Identities = 10/46 (21%), Positives = 16/46 (34%), Gaps = 6/46 (13%)
Query: 134 PMFKEMFK---PPDLDE---LLMHVRHNKKKMIHCTSTKVFEFTWI 173
P + E K P + L RH + S K+F ++
Sbjct: 90 PRWFETVKVAIPIEDVNRSHLRFTFRHRSSQDSKDKSEKIFALAFV 135
>1qgv_A Spliceosomal protein U5-15KD; snRNP, thioredoxin, transcription;
1.40A {Homo sapiens} SCOP: c.47.1.8 PDB: 1syx_A 1pqn_A
Length = 142
Score = 27.3 bits (60), Expect = 5.5
Identities = 17/77 (22%), Positives = 32/77 (41%), Gaps = 3/77 (3%)
Query: 109 DSFRSKIARLERNFAVSKVIFTKYLPMFKEMFKPPDLDELLMHVRHNKKKMIHCTSTKVF 168
D IA +NFAV ++ +P F +M++ D ++ R+ + T
Sbjct: 42 DEVLYSIAEKVKNFAVIYLVDITEVPDFNKMYELYDPCTVMFFFRNKHIMIDLGTGNN-N 100
Query: 169 EFTWILFVLTKAEYLDV 185
+ W + K E +D+
Sbjct: 101 KINWAME--DKQEMVDI 115
>2av4_A Thioredoxin-like protein 4A (DIM1); U5 snRNP-SPECIFIC 15KD prote
structural genomics, structural genomics consortium,
SGC, U function; 1.73A {Plasmodium yoelii}
Length = 160
Score = 27.4 bits (60), Expect = 6.6
Identities = 16/88 (18%), Positives = 33/88 (37%), Gaps = 3/88 (3%)
Query: 98 CRKWADMRKLPDSFRSKIARLERNFAVSKVIFTKYLPMFKEMFKPPDLDELLMHVRHNKK 157
+ D K+A +NF V ++ +P F M++ D ++ R+
Sbjct: 49 GHDYDPDCMKMDELLYKVADDIKNFCVIYLVDITEVPDFNTMYELYDPVSVMFFYRNKHM 108
Query: 158 KMIHCTSTKVFEFTWILFVLTKAEYLDV 185
+ T + W + K E++D+
Sbjct: 109 MIDLGTGNN-NKINWPMN--NKQEFIDI 133
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
0.321 0.137 0.424
Gapped
Lambda K H
0.267 0.0503 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,385,293
Number of extensions: 379550
Number of successful extensions: 786
Number of sequences better than 10.0: 1
Number of HSP's gapped: 766
Number of HSP's successfully gapped: 36
Length of query: 407
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 311
Effective length of database: 4,021,377
Effective search space: 1250648247
Effective search space used: 1250648247
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 (21.9 bits)
S2: 58 (26.7 bits)