RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254781110|ref|YP_003065523.1| von Willebrand factor type A
[Candidatus Liberibacter asiaticus str. psy62]
(420 letters)
>2odp_A Complement C2; C3/C5 convertase, complement serine protease, human
complement system, glycoprotein, SP, VWFA, hydrolase;
HET: NAG; 1.90A {Homo sapiens} PDB: 2odq_A* 2i6q_A*
2i6s_A*
Length = 509
Score = 60.7 bits (146), Expect = 6e-10
Identities = 30/229 (13%), Positives = 72/229 (31%), Gaps = 42/229 (18%)
Query: 193 IELVVDLSGSMHCAMNSDPEDVNSAPICQDKKRTKMAALKNALLLFLDSIDLLSHVKEDV 252
+ L++D S S+ K + L +D I + +V
Sbjct: 12 LYLLLDASQSV--------------------SENDFLIFKESASLMVDRIFSF---EINV 48
Query: 253 YMGLIGYTTRVEKNIEPSWGTEKVRQYVTRDMDSLILKP------TDSTPAMKQAYQILT 306
+ +I + + + + + V +++ K T++ A+ Y ++
Sbjct: 49 SVAIITFASEPKVLMSVLNDNSRDMTEVISSLENANYKDHENGTGTNTYAALNSVYLMMN 108
Query: 307 SDKKRSFFTNFFRQGVKIPSLPFQKFIIFLTDGENNNFKSNVNTIK------ICDKAKEN 360
+ + Q + + II LTDG++N S + ++ + +
Sbjct: 109 NQMRLLGMETMAWQEI-------RHAIILLTDGKSNMGGSPKTAVDHIREILNINQKRND 161
Query: 361 FIKIVTISINASPNGQRLLKTCVSSPEYHYNVVNADSLIHVFQNISQLM 409
++ I I + R L S + + + Q ++
Sbjct: 162 YLDIYAIGVGKLDVDWRELNELGSKKDGERHAFILQDTKALHQVFEHML 210
>1rrk_A Complement factor B; BB, hydrolase; 2.00A {Homo sapiens} SCOP:
b.47.1.2 c.62.1.1 PDB: 1rs0_A* 1rtk_A* 2win_I* 1dle_A
Length = 497
Score = 54.2 bits (129), Expect = 5e-08
Identities = 33/244 (13%), Positives = 76/244 (31%), Gaps = 53/244 (21%)
Query: 193 IELVVDLSGSMHCAMNSDPEDVNSAPICQDKKRTKMAALKNALLLFLDSIDLLSHVKEDV 252
I LV+D S S+ + K L+ ++ +
Sbjct: 4 IYLVLDGSDSI--------------------GASNFTGAKKVLVNLIEKVASYG---VKP 40
Query: 253 YMGLIGYTTRVEKNIEPSWGTEKVRQYVTRDMDSLILKP------TDSTPAMKQAYQILT 306
GL+ Y T + ++ S +VT+ ++ + + T++ A++ Y ++
Sbjct: 41 RYGLVTYATYPKIWVKVSEADSSNADWVTKQLNEINYEDHKLKSGTNTKKALQAVYSMM- 99
Query: 307 SDKKRSFFTNFFRQGVKIPSLPFQKFIIFLTDGENN----------NFKSNVNTIKICDK 356
++ + II +TDG +N + + K
Sbjct: 100 ---------SWPDDVPPEGWNRTRHVIILMTDGLHNMGGDPITVIDEIRDLLYIGKDRKN 150
Query: 357 AKENFIKIVTISINASPNGQRLLKTCVSSP---EYHYNVVNADSLIHVFQNISQLMVHRK 413
+E+++ + + N Q + S ++ V + + L VF +
Sbjct: 151 PREDYLDVYVFGVGPLVN-QVNINALASKKDNEQHVCKVKDMECLEDVFYQMIDESQSLS 209
Query: 414 YSVI 417
+
Sbjct: 210 LCGM 213
>1q0p_A Complement factor B; VON willebrand factor, MAC-1, I domain, A
domain, hydrolase; 1.80A {Homo sapiens} SCOP: c.62.1.1
Length = 223
Score = 50.7 bits (120), Expect = 6e-07
Identities = 33/236 (13%), Positives = 77/236 (32%), Gaps = 53/236 (22%)
Query: 193 IELVVDLSGSMHCAMNSDPEDVNSAPICQDKKRTKMAALKNALLLFLDSIDLLSHVKEDV 252
I LV+D S S+ + K +L+ ++ +
Sbjct: 18 IYLVLDGSDSI--------------------GASNFTGAKKSLVNLIEKVASYG---VKP 54
Query: 253 YMGLIGYTTRVEKNIEPSWGTEKVRQYVTRDMDSLILKP------TDSTPAMKQAYQILT 306
GL+ Y T + ++ S +VT+ ++ + + T++ A++ Y +++
Sbjct: 55 RYGLVTYATYPKIWVKVSEADSSNADWVTKQLNEINYEDHKLKSGTNTKKALQAVYSMMS 114
Query: 307 SDKKRSFFTNFFRQGVKIPSLPFQKFIIFLTDGENN----------NFKSNVNTIKICDK 356
+ II +TDG +N + + K
Sbjct: 115 WPDDVP----------PEGWNRTRHVIILMTDGLHNMGGDPITVIDEIRDLLYIGKDRKN 164
Query: 357 AKENFIKIVTISINASPNGQRLLKTCVSSP---EYHYNVVNADSLIHVFQNISQLM 409
+E+++ + + N Q + S ++ + V + ++L VF +
Sbjct: 165 PREDYLDVYVFGVGPLVN-QVNINALASKKDNEQHVFKVKDMENLEDVFYQMIDES 219
>3hrz_D Complement factor B; serine protease, glycosilated, multi-domain,
complement system, convertase, complement alternate
pathway, complement pathway; HET: NAG P6G; 2.20A {Homo
sapiens} PDB: 3hs0_D* 2ok5_A*
Length = 741
Score = 50.7 bits (120), Expect = 7e-07
Identities = 26/231 (11%), Positives = 72/231 (31%), Gaps = 31/231 (13%)
Query: 200 SGSMHCAMNSDPEDVNSAPICQDKKRTKMAALKNALLLFLDSIDLLSHVKEDVYMGLIGY 259
+ + + K L+ ++ + GL+ Y
Sbjct: 233 KRKIVLDPSGSMNIYLVLDGSGSIGASDFTGAKKCLVNLIEKVASYGV---KPRYGLVTY 289
Query: 260 TTRVEKNIEPSWGTEKVRQYVTRDMDSLILKP------TDSTPAMKQAYQILTSDKKRSF 313
T + ++ S +VT+ ++ + + T++ A++ Y ++
Sbjct: 290 ATYPKIWVKVSEADSSNADWVTKQLNEINYEDHKLKSGTNTKKALQAVYSMM-------- 341
Query: 314 FTNFFRQGVKIPSLPFQKFIIFLTDGENN----------NFKSNVNTIKICDKAKENFIK 363
++ + II +TDG +N + + K +E+++
Sbjct: 342 --SWPDDVPPEGWNRTRHVIILMTDGLHNMGGDPITVIDEIRDLLYIGKDRKNPREDYLD 399
Query: 364 IVTISINASPNGQRL--LKTCVSSPEYHYNVVNADSLIHVFQNISQLMVHR 412
+ + N + L + + ++ + V + ++L VF +
Sbjct: 400 VYVFGVGPLVNQVNINALASKKDNEQHVFKVKDMENLEDVFYQMIDESQSL 450
>1ijb_A VON willebrand factor; dinucleotide-binding fold, blood clotting;
1.80A {Homo sapiens} SCOP: c.62.1.1 PDB: 1ijk_A 1auq_A
1u0n_A 3hxo_A 1uex_C 3hxq_A 1sq0_A 1m10_A 1fns_A 1oak_A
1u0o_C
Length = 202
Score = 48.8 bits (115), Expect = 2e-06
Identities = 21/222 (9%), Positives = 66/222 (29%), Gaps = 40/222 (18%)
Query: 187 ERPIFLIELVVDLSGSMHCAMNSDPEDVNSAPICQDKKRTKMAALKNALLLFLDSIDLLS 246
R + L+ ++D S + + LK ++ ++ +
Sbjct: 11 SRLLDLV-FLLDGSSRL--------------------SEAEFEVLKAFVVDMMERLR--- 46
Query: 247 HVKEDVYMGLIGYTTRVEKNIEPSWGTEKVRQYVTRDMDSLILKPTDSTPAMKQAYQILT 306
++ V + ++ Y I ++ + + + + ++L
Sbjct: 47 VSQKWVRVAVVEYHDGSHAYIGLKDRKRPS------ELRRIASQVKYAGSQVASTSEVLK 100
Query: 307 SDKKRSFFTNFFRQGVKIPSLPFQKFIIFLTDGENNNFKSNVNTIKICDKAKENFIKIVT 366
+ F + + ++ + E + N ++ K+ + ++
Sbjct: 101 YTLFQIFSKIDRPEA-------SRIALLLMASQEPQR--MSRNFVRYVQGLKKKKVIVIP 151
Query: 367 ISINASPNGQRLLKTCVSSPEYH-YNVVNADSLIHVFQNISQ 407
+ I N +++ +PE + + + D L I
Sbjct: 152 VGIGPHANLKQIRLIEKQAPENKAFVLSSVDELEQQRDEIVS 193
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 48.4 bits (115), Expect = 3e-06
Identities = 82/444 (18%), Positives = 141/444 (31%), Gaps = 158/444 (35%)
Query: 70 SNLSRLGDRFE-SISNHAKRALIDD--------AKRFIKNHIKESLSGYSAVFYNTEIQN 120
S+L ++F + + DD +F+ ++ + ++ +
Sbjct: 28 FIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFL-GYVSSLVEPSKVGQFDQVLNL 86
Query: 121 IVNSSRISMTHMANN-------RLDSSNNT-IFYNMDVMTSYDYRLQFIEHLLNQRYNQK 172
+ ++ N +L N+T + +++ +Y + + + +++K
Sbjct: 87 CLTE--FENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNY-ITAR---IMAKRPFDKK 140
Query: 173 IVSFIPALLR-IEMGERPIFLI------------EL----------VVDL---SGSMHCA 206
S AL R + G + I EL V DL S
Sbjct: 141 SNS---ALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSE 197
Query: 207 MNSDPEDVNSAPICQDKKRTK----MAALKNALLLFLDS---IDLLSHVKEDVYMGLIG- 258
+ D +K T+ + L+N + D L + + LIG
Sbjct: 198 LIRTTLDA-------EKVFTQGLNILEWLENP-----SNTPDKDYLLSIP--ISCPLIGV 243
Query: 259 -----Y--TTRVEKNIEPSWGTEKVRQYVTRDMDSLILKPTD--STPAMKQ----AYQIL 305
Y T ++ P G +R Y LK S Q A I
Sbjct: 244 IQLAHYVVTAKL-LGFTP--GE--LRSY---------LKGATGHS-----QGLVTAVAIA 284
Query: 306 TSDKKRSFFTNF-------FRQGVK----IP--SLPFQKFIIFLTDGENNN--FKSNVNT 350
+D SFF + F GV+ P SLP L D NN S + +
Sbjct: 285 ETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPS----ILEDSLENNEGVPSPMLS 340
Query: 351 IKICDKAK-ENFI----------KIVTISINASPNGQRLLKTCVSSPE---YHYNV---- 392
I + + ++++ K V IS+ NG + L VS P Y N+
Sbjct: 341 ISNLTQEQVQDYVNKTNSHLPAGKQVEISLV---NGAKNL--VVSGPPQSLYGLNLTLRK 395
Query: 393 VNADSLIHVFQN-I--SQLMVHRK 413
A S + Q+ I S+ RK
Sbjct: 396 AKAPS--GLDQSRIPFSE----RK 413
Score = 33.0 bits (75), Expect = 0.13
Identities = 55/306 (17%), Positives = 97/306 (31%), Gaps = 119/306 (38%)
Query: 27 ALSVMSFLLLIGFLIYVLDWHYKKNSMESANNAAILA-------GA-SKM--VSNLSR-- 74
++ L IG Y Y S+ +IL G S M +SNL++
Sbjct: 296 VRKAITVLFFIGVRCYE---AYPNTSLPP----SILEDSLENNEGVPSPMLSISNLTQEQ 348
Query: 75 LGDRFESISNH---AKR---ALIDDAKRFIKNHIKESLSGYSAVFY--NTEIQNI----- 121
+ D ++H K+ +L++ AK + +SG Y N ++
Sbjct: 349 VQDYVNKTNSHLPAGKQVEISLVNGAKNLV-------VSGPPQSLYGLNLTLRKAKAPSG 401
Query: 122 VNSSRISMTHMANNR-LDSSNN-----TIFYNMDVMTSYDYRLQFIEHLLNQRYNQKIVS 175
++ SRI + R L SN + F+ + L L+N+ + VS
Sbjct: 402 LDQSRIPFS----ERKLKFSNRFLPVASPFH-----SHL---LVPASDLINKDLVKNNVS 449
Query: 176 FIPALLRIEMGERPIF--------------LIELVVDLSGSMHCAMNSDPEDVNSAPICQ 221
F ++I P++ + E +VD I +
Sbjct: 450 FNAKDIQI-----PVYDTFDGSDLRVLSGSISERIVDC-------------------IIR 485
Query: 222 D----KKRTKMAALKNALLLF----LDSI-DLLSHVKEDVYMGLIGYTTRV------EKN 266
+ T+ A +L F + L K+ G RV + N
Sbjct: 486 LPVKWETTTQFKA--THILDFGPGGASGLGVLTHRNKD-------GTGVRVIVAGTLDIN 536
Query: 267 IEPSWG 272
+ +G
Sbjct: 537 PDDDYG 542
>1n3y_A Integrin alpha-X; alpha/beta rossmann fold, cell adhesion; 1.65A
{Homo sapiens} SCOP: c.62.1.1
Length = 198
Score = 46.7 bits (110), Expect = 8e-06
Identities = 27/218 (12%), Positives = 63/218 (28%), Gaps = 45/218 (20%)
Query: 195 LVVDLSGSMHCAMNSDPEDVNSAPICQDKKRTKMAALKNALLLFLDSIDLLSHVKEDVYM 254
++D SGS+ A + N + + +
Sbjct: 14 FLIDGSGSI--------------------SSRNFATMMNFVRAVISQFQ-----RPSTQF 48
Query: 255 GLIGYTTRVEKNIEPSWGTEKVRQYVTRDMDSLILKPTDSTPAMKQAYQILTSDKKRSFF 314
L+ ++ + + + + T + A++ L +
Sbjct: 49 SLMQFSNKFQTHFTFEEFRRSSNPLSLLASVHQLQGFTYTATAIQNVVHRLFHASYGA-- 106
Query: 315 TNFFRQGVKIPSLPFQKFIIFLTDGENNNFKSNVNTIKICDKAKENFIKIVTISI---NA 371
R+ K +I +TDG+ +++ + A I I +
Sbjct: 107 ----RRDA-------AKILIVITDGKKEG--DSLDYKDVIPMADAAGIIRYAIGVGLAFQ 153
Query: 372 SPNGQRLLKTCVSSP--EYHYNVVNADSLIHVFQNISQ 407
+ N + L S P E+ + V + D+L + + +
Sbjct: 154 NRNSWKELNDIASKPSQEHIFKVEDFDALKDIQNQLKE 191
>1mf7_A Integrin alpha M; cell adhesion; 1.25A {Homo sapiens} SCOP:
c.62.1.1 PDB: 1na5_A 1jlm_A 1ido_A 1m1u_A 1n9z_A 1bhq_1
1bho_1 1idn_1
Length = 194
Score = 44.5 bits (104), Expect = 4e-05
Identities = 26/218 (11%), Positives = 65/218 (29%), Gaps = 45/218 (20%)
Query: 195 LVVDLSGSMHCAMNSDPEDVNSAPICQDKKRTKMAALKNALLLFLDSIDLLSHVKEDVYM 254
++D SGS+ +K + ++ + K
Sbjct: 10 FLIDGSGSI--------------------IPHDFRRMKEFVSTVMEQLK-----KSKTLF 44
Query: 255 GLIGYTTRVEKNIEPSWGTEKVRQYVTRDMDSLILKPTDSTPAMKQAYQILTSDKKRSFF 314
L+ Y+ + + +L T + +++ + L + +
Sbjct: 45 SLMQYSEEFRIHFTFKEFQNNPNPRSLVKPITQLLGRTHTATGIRKVVRELFNITNGARK 104
Query: 315 TNFFRQGVKIPSLPFQKFIIFLTDGENNNFKSNVNTIKICDKAKENFIKIVTISINASPN 374
F K ++ +TDGE + + +A + I + +
Sbjct: 105 NAF-------------KILVVITDGEKFG--DPLGYEDVIPEADREGVIRYVIGVGDAFR 149
Query: 375 G---QRLLKTCVSSP--EYHYNVVNADSLIHVFQNISQ 407
++ L T S P ++ + V N ++L + + +
Sbjct: 150 SEKSRQELNTIASKPPRDHVFQVNNFEALKTIQNQLRE 187
>2x31_A Magnesium-chelatase 60 kDa subunit; ligase, bacteriochlorophyll
biosynthesis, photosynthesis; 7.50A {Rhodobacter
capsulatus}
Length = 189
Score = 42.0 bits (98), Expect = 2e-04
Identities = 29/202 (14%), Positives = 50/202 (24%), Gaps = 56/202 (27%)
Query: 184 EMGERPIFLIELVVDLSGSMHCAMNSDPEDVNSAPICQDKKRTKMAALKNALLLFLDSID 243
EM +R + VD SGS +++ K A+ L L
Sbjct: 2 EMSDRVLIF---AVDASGSA--------------------AVARLSEAKGAVELLLGRAY 38
Query: 244 LLSHVKEDVYMGLIGYTTRVEKNIEPSWG-TEKVRQYVTRDMDSLILKPTDSTPAMKQAY 302
++ LI + + + + ++ + T M+ A
Sbjct: 39 -----AARDHVSLITFRGTAAQVLLQPSRSLTQTKRQLQGLPGGGG---TPLASGMEMAM 90
Query: 303 QILTSDKKRSFFTNFFRQGVKIPSLPFQKFIIFLTDGENNNFKSNVN--------TIKIC 354
+ R I LTDG N K+
Sbjct: 91 VTAKQARSRG----------------MTPTIALLTDGRGNIALDGTANRELAGEQATKVA 134
Query: 355 DKAKENFIKIVTISINASPNGQ 376
+ + + V I PN
Sbjct: 135 RAIRASGMPAVIIDTAMRPNPA 156
>2xgg_A Microneme protein 2; A/I domain, cell adhesion, hydrolase; 2.05A
{Toxoplasma gondii}
Length = 178
Score = 37.5 bits (86), Expect = 0.005
Identities = 26/175 (14%), Positives = 52/175 (29%), Gaps = 37/175 (21%)
Query: 195 LVVDLSGSMHCAMNSDPEDVNSAPICQDKKRTKMAALKNALLLFLDSIDLLSHVKEDVYM 254
++D SGS+ +K L FL L E+V
Sbjct: 22 FLIDSSGSI--------------------GIQNFRLVKQFLHTFLMV---LPIGPEEVNN 58
Query: 255 GLIGYTTRVEKNIEPSWGTEKVRQYVTRDMDSLILKPTDSTPAMKQAYQILTSDKKRSFF 314
++ Y+T V + +Q + M +
Sbjct: 59 AVVTYSTDVHLQWDLQSPNAVDKQLAAHAVLD-----------MPYKKGSTNTSDGLKAC 107
Query: 315 TNFFRQGVKIPSLPFQKFIIFLTDGENNNFKSNVNTIKICDKAKENFIKIVTISI 369
G + K +I +TDGE++ S+ T++ + +E + +++
Sbjct: 108 KQILFTGSRPGREHVPKLVIGMTDGESD---SDFRTVRAAKEIRELGGIVTVLAV 159
>1shu_X Anthrax toxin receptor 2; alpha/beta rossmann fold, membrane
protein; 1.50A {Homo sapiens} SCOP: c.62.1.1 PDB: 1tzn_a
1sht_X 1t6b_Y*
Length = 182
Score = 35.3 bits (80), Expect = 0.026
Identities = 25/216 (11%), Positives = 60/216 (27%), Gaps = 46/216 (21%)
Query: 193 IELVVDLSGSMHCAMNSDPEDVNSAPICQDKKRTKMAALKNALLLFLDSIDLLSHVKEDV 252
+ V+D SGS+ + ++ F+ ++
Sbjct: 9 LYFVLDKSGSV-----------------ANNWIEIYNFVQQLAERFVS---------PEM 42
Query: 253 YMGLIGYTTRVEKNIEPSWGTEKVRQYVTRDMDSLILKPTDSTPAMKQAYQILTSDKKRS 312
+ I ++++ + + K+ + + + T +K A + +
Sbjct: 43 RLSFIVFSSQATIILPLTGDRGKISKGLEDLKRVSPVGETYIHEGLKLANEQIQKAGGLK 102
Query: 313 FFTNFFRQGVKIPSLPFQKFIIFLTDGENNNFKSNVNTIKICDKAKENFIKIVTISINAS 372
II LTDG+ + K ++ + + +
Sbjct: 103 ----------------TSSIIIALTDGKLDG-LVPSYAEKEAKISRSLGASVYCVGVLDF 145
Query: 373 PNGQRLLKTCVSSPEYHYNVV-NADSLIHVFQNISQ 407
Q L+ S E + V +L + +I
Sbjct: 146 --EQAQLERIADSKEQVFPVKGGFQALKGIINSILA 179
>1pt6_A Integrin alpha-1; X-RAY diffraction, cell adhesion; 1.87A {Homo
sapiens} SCOP: c.62.1.1 PDB: 1qcy_A 1qc5_A 1qc5_B 1ck4_A
1mhp_A
Length = 213
Score = 34.4 bits (78), Expect = 0.050
Identities = 39/225 (17%), Positives = 84/225 (37%), Gaps = 50/225 (22%)
Query: 193 IELVVDLSGSMHCAMNSDPEDVNSAPICQDKKRTKMAALKNALLLFLDSIDLLSHVKEDV 252
I +V+D S S+ ++ L L +D + + V
Sbjct: 10 IVIVLDGSNSI----------------------YPWDSVTAFLNDLLKRMD-IGPKQTQV 46
Query: 253 YMGLIGYTTRVEKNIEPSWGTEKVRQYVTRDMDSLILKPTDSTPAMKQAYQILTSDKKRS 312
+ G E N+ TE+V + + + T + A + ++ + +
Sbjct: 47 GIVQYGENVTHEFNLNKYSSTEEVLVAA-KKIVQRGGRQTMTALGTDTARKEAFTEARGA 105
Query: 313 FFTNFFRQGVKIPSLPFQKFIIFLTDGENNNFKSNVNTIKICDKAKENFIKIVTISINAS 372
R+GVK ++ +TDGE+++ N K+ ++ I+ +I+I S
Sbjct: 106 ------RRGVKK-------VMVIVTDGESHD---NHRLKKVIQDCEDENIQRFSIAILGS 149
Query: 373 PNGQRL--------LKTCVSSP--EYHYNVVNADSLIHVFQNISQ 407
N L +K+ S P ++ +NV + +L+ + + + +
Sbjct: 150 YNRGNLSTEKFVEEIKSIASEPTEKHFFNVSDELALVTIVKTLGE 194
>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 = 34.2 bits (77), Expect = 0.055
Identities = 10/25 (40%), Positives = 13/25 (52%), Gaps = 2/25 (8%)
Query: 274 EKVRQYVTRDMDSLILKPTDSTPAM 298
EK Q + + SL L DS PA+
Sbjct: 18 EK--QALKKLQASLKLYADDSAPAL 40
>2x5n_A SPRPN10, 26S proteasome regulatory subunit RPN10; nuclear protein,
nucleus, ubiquitin; 1.30A {Schizosaccharomyces pombe}
Length = 192
Score = 33.9 bits (76), Expect = 0.063
Identities = 21/186 (11%), Positives = 50/186 (26%), Gaps = 38/186 (20%)
Query: 195 LVVDLSGSMHCAMNSDPEDVNSAPICQDKKRTKMAALKNALLLFLDSIDLLSHVKEDVYM 254
+++D S M D T+ A K+ + + + ++ E++
Sbjct: 7 ILIDNSEWMI---------------NGDYIPTRFEAQKDTVHMIFN--QKINDNPENMCG 49
Query: 255 GLIGYTTRVEKNIEPSWGTEKVRQYVTRDMDSLILKPTDSTPAMKQAYQILTSDKKRSFF 314
+ + + K + ++ A L
Sbjct: 50 LMTIGDNSPQVLSTLTRDYGKFLSAMHDLPVRGN---AKFGDGIQIAQLAL--------- 97
Query: 315 TNFFRQGVKIPSLPFQKFIIFLTDGENNNFKSNVNTIKICDKAKENFIKIVTISINASPN 374
+ ++ I+ + N+ I++ + K+N + I I I N
Sbjct: 98 -------KHRENKIQRQRIVAFVGSPIVEDEKNL--IRLAKRMKKNNVAIDIIHIGELQN 148
Query: 375 GQRLLK 380
L
Sbjct: 149 ESALQH 154
>1jey_B KU80; double-strand DNA break repair, non-homologous END-joining,
protein/nucleic acid complex, alpha/beta domain, beta
barrel; HET: DNA; 2.50A {Homo sapiens} SCOP: b.131.1.2
c.62.1.4 PDB: 1jeq_B*
Length = 565
Score = 32.8 bits (74), Expect = 0.15
Identities = 27/180 (15%), Positives = 49/180 (27%), Gaps = 28/180 (15%)
Query: 195 LVVDLSGSMHCAMNSDPEDVNSAPICQDKKRTKMAALKNALLLFLDSIDLLSHVKEDVYM 254
L +D+ +M NS P + K + +F+ +D +
Sbjct: 12 LCMDVGFTMS---NSIP-----------GIESPFEQAKKVITMFVQRQVFAE--NKD-EI 54
Query: 255 GLIGYTTRVEKNIEPSWGTEKVRQYVTRDMDS----LILKPTDSTPAMKQAYQILTSDKK 310
L+ + T N + V R + L+ Q L +
Sbjct: 55 ALVLFGTDGTDNPLSGGDQYQ-NITVHRHLMLPDFDLLEDIESKIQPGSQQADFLDALIV 113
Query: 311 RSFFTNFFRQGVKIPSLPFQKFIIFLTDGENNNFKSNVNTIKICDKAKENFIKIVTISIN 370
G K ++ I TD + KS ++ I K+ I +
Sbjct: 114 SMDVIQHETIGKKF----EKRHIEIFTDLSSRFSKSQLDI--IIHSLKKCDISLQFFLPF 167
>2nvo_A RO sixty-related protein, RSR; alpha helical repeats, VON
willebrand factor A domain, beta- sheet, RNA binding
protein; 1.89A {Deinococcus radiodurans}
Length = 535
Score = 31.5 bits (71), Expect = 0.42
Identities = 7/49 (14%), Positives = 16/49 (32%), Gaps = 5/49 (10%)
Query: 331 KFIIFLTDGENNNFKSNVNTIKICDKAKENF---IKIVTISINASPNGQ 376
+ TD E V+ D+ + K++ + + A+
Sbjct: 458 DTFVVYTDNETWA--GQVHPTVALDQYAQKMGRAPKLIVVGLTATEFSI 504
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 31.0 bits (70), Expect = 0.57
Identities = 13/61 (21%), Positives = 19/61 (31%), Gaps = 13/61 (21%)
Query: 337 TDGENNNFKSNVNTIKICDKAKENFIKIVTISINASPNGQRLLKTC--V-------SSPE 387
D N+N + C + K KIV S G + C V + E
Sbjct: 7 IDKRAGRRGPNLNIVLTCPECKVYPPKIVE---RFS-EGDVVCALCGLVLSDKLVDTRSE 62
Query: 388 Y 388
+
Sbjct: 63 W 63
>1yvr_A RO autoantigen, 60-kDa SS-A/RO ribonucleoprotein, 60 kDa; heat
repeat, VON willebrand factor A, rossmann fold, midas
motif', RNA binding protein; 1.95A {Xenopus laevis}
SCOP: a.118.25.1 c.62.1.5 PDB: 1yvp_A 2i91_A
Length = 538
Score = 30.3 bits (68), Expect = 0.78
Identities = 24/212 (11%), Positives = 57/212 (26%), Gaps = 50/212 (23%)
Query: 168 RYNQKIVSFIPALLRIEMGERPIFLIELVV--DLSGSMHCAMNSDPEDVNSAPICQDKKR 225
+ IV + ++ D+S SM+ +
Sbjct: 344 IPDTSIVEALDNAFYKSFKLVEPTGKRFLLAIDVSASMNQ---------------RVLGS 388
Query: 226 TKMAALKNALLLFLDSIDLLSHVKEDVYMGLIGYTTRVEKNIEPSWGTEKVRQYVTRDMD 285
A++ A + L ++ ++D ++ ++ + P + + V + M
Sbjct: 389 ILNASVVAAAMCML-----VARTEKDS--HMVAFSDEMLP--CPITVNMLLHEVVEK-MS 438
Query: 286 SLILKPTDSTPAMKQAYQILTSDKKRSFFTNFFRQGVKIPSLPFQKFIIFLTDGENN-NF 344
+ + TD M A + I TD E N
Sbjct: 439 DITMGSTDCALPMLWAQ-----KTNTAA-----------------DIFIVFTDCETNVED 476
Query: 345 KSNVNTIKICDKAKENFIKIVTISINASPNGQ 376
+K + K++ ++ ++
Sbjct: 477 VHPATALKQYREKMGIPAKLIVCAMTSNGFSI 508
>2fiq_A Putative tagatose 6-phosphate kinase 1; structural genomics, PSI,
protein structure initiative; 2.25A {Escherichia coli
O157} SCOP: c.1.10.7
Length = 420
Score = 29.8 bits (67), Expect = 1.2
Identities = 11/63 (17%), Positives = 19/63 (30%), Gaps = 8/63 (12%)
Query: 57 NNAAILAGASKMVSNLSRLGDRFESISNH--------AKRALIDDAKRFIKNHIKESLSG 108
++ I M+ NL + IS + L + I + I + L
Sbjct: 354 PHSRIKNSVETMMVNLQGVDIPLGMISQYLPKQFERIQSGELSAIPHQLIMDKIYDVLRA 413
Query: 109 YSA 111
Y
Sbjct: 414 YRY 416
>3ibs_A Conserved hypothetical protein BATB; structural genomics, protein
structure, midwest center for structural genomics, MCSG,
PSI-2; HET: MSE; 2.10A {Bacteroides thetaiotaomicron}
Length = 218
Score = 29.7 bits (65), Expect = 1.4
Identities = 23/156 (14%), Positives = 45/156 (28%), Gaps = 49/156 (31%)
Query: 193 IELVVDLSGSMHCAMNSDPEDVNSAPICQDKKRTKMAALKNALLLFLDSIDLLSHVKEDV 252
+ + +D+S SM QD + +++ K + +D +D +
Sbjct: 14 VIIALDISNSML---------------AQDVQPSRLEKAKRLISRLVDELD-------ND 51
Query: 253 YMGLIGYTTRVEKNIEPSWGTEKVRQYVTRDMDSLILKPTDSTPAMKQAYQILTSDKKRS 312
+G+I + L T + K + ++
Sbjct: 52 KVGMIVF----------------------AGDAFTQLPITSDYISAKMFLESISPSLISK 89
Query: 313 FFTNFFR-----QGVKIPSLPFQKFIIFLTDGENNN 343
T P + II +TDGEN+
Sbjct: 90 QGTAIGEAINLATRSFTPQEGVGRAIIVITDGENHE 125
>1mjn_A Integrin alpha-L; rossmann fold, immune system; 1.30A {Escherichia
coli} SCOP: c.62.1.1 PDB: 3hi6_A 1mq8_B* 3eoa_I 3eob_I
1rd4_A* 1lfa_A 1zon_A 1zoo_A 1zop_A 1dgq_A 1xdd_A*
1xdg_A* 1xuo_A* 3e2m_A* 3bqn_B* 1cqp_A* 3bqm_B* 2ica_A*
2o7n_A* 3f78_A* ...
Length = 179
Score = 27.6 bits (60), Expect = 5.5
Identities = 21/215 (9%), Positives = 58/215 (26%), Gaps = 46/215 (21%)
Query: 195 LVVDLSGSMHCAMNSDPEDVNSAPICQDKKRTKMAALKNALLLFLDSIDLLSHVKEDVYM 254
+ D S S+ + + + + + +
Sbjct: 7 FLFDGSMSL--------------------QPDEFQKILDFMKDVMKKCS-----NTSYQF 41
Query: 255 GLIGYTTRVEKNIEPSWGTEKVRQYVTRDMDSLILKPTDSTPAMKQAYQILTSDKKRSFF 314
+ ++T + + S ++ +L T++ A+ + ++ +
Sbjct: 42 AAVQFSTSYKTEFDFSDYVKRKDPDALLKHVKHMLLLTNTFGAINYVATEVFREELGA-- 99
Query: 315 TNFFRQGVKIPSLPFQKFIIFLTDGENNNFKSNVNTIKICDKAKENFIKIVTISINASPN 374
R +I +TDG ++ + K +I + +
Sbjct: 100 ----RPDATK-------VLIIITDG-----EATDSGNIDAAKDIIRYIIGIGKHFQTKES 143
Query: 375 GQRLLKTCVSSP--EYHYNVVNADSLIHVFQNISQ 407
Q L S P E+ + + L + + +
Sbjct: 144 -QETLHKFASKPASEFVKILDTFEKLKDLCTELQK 177
>2ctq_A DNAJ homolog subfamily C member 12; J-domain, chaperone,
helix-turn-helix, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 112
Score = 27.0 bits (59), Expect = 7.0
Identities = 7/73 (9%), Positives = 27/73 (36%), Gaps = 3/73 (4%)
Query: 263 VEKNIEPSWGTEKVRQYVTRDMDSLILKPTDSTPAMKQ---AYQILTSDKKRSFFTNFFR 319
++ + + + + ++ A +ILT+++ R+ + ++ R
Sbjct: 28 CDELSSVEQILAEFKVRALECHPDKHPENPKAVETFQKLQKAKEILTNEESRARYDHWRR 87
Query: 320 QGVKIPSLPFQKF 332
+ +P ++
Sbjct: 88 SQMSMPFQQWEAL 100
>3m5w_A Tryptophanyl-tRNA synthetase; alpha-beta structure, csgid,
aminoacyl-tRNA synthetase, ATP- binding, cytoplasm,
ligase, nucleotide-binding; 2.32A {Campylobacter jejuni}
Length = 322
Score = 26.9 bits (59), Expect = 7.8
Identities = 14/90 (15%), Positives = 29/90 (32%), Gaps = 1/90 (1%)
Query: 285 DSLILKPTDSTPAMKQAYQILTSDKKRSFFTNFFRQGVKIPSLPFQKFIIFLTDGENN-N 343
D L+ Q + + N + + +P + + + +
Sbjct: 134 DILLFDTRIVPVGKDQIQHVEIARDIALKVNNEWGEIFTLPEARVNEEVAVVVGTDGAKM 193
Query: 344 FKSNVNTIKICDKAKENFIKIVTISINASP 373
KS NTI I K +I +I +++
Sbjct: 194 SKSYQNTIDIFSSEKTLKKQISSIVTDSTA 223
>3gxb_A VON willebrand factor; VWA-like fold, blood coagulation, cell
adhesion, cleavage on PAIR of basic residues, disease
mutation, disulfide bond; HET: NAG; 1.90A {Homo sapiens}
Length = 184
Score = 27.1 bits (59), Expect = 8.1
Identities = 9/78 (11%), Positives = 27/78 (34%), Gaps = 12/78 (15%)
Query: 330 QKFIIFLTDGENNNFKSNVNTIKICDKAKENFIKIVTISINASPNGQRLLKTCVSSPEYH 389
+ +T ++ +I + ++V I + + N Q L + + P
Sbjct: 107 PNLVYMVTGNPASD--------EIKRLPGDI--QVVPIGVGPNANVQELER--IGWPNAP 154
Query: 390 YNVVNADSLIHVFQNISQ 407
+ + ++L ++
Sbjct: 155 ILIQDFETLPREAPDLVL 172
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.322 0.135 0.383
Gapped
Lambda K H
0.267 0.0454 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 3,404,787
Number of extensions: 153314
Number of successful extensions: 504
Number of sequences better than 10.0: 1
Number of HSP's gapped: 496
Number of HSP's successfully gapped: 38
Length of query: 420
Length of database: 5,693,230
Length adjustment: 95
Effective length of query: 325
Effective length of database: 3,390,050
Effective search space: 1101766250
Effective search space used: 1101766250
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 (26.8 bits)