RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3362
(550 letters)
>3n3w_A Ribonuclease III; nuclease domain, ribonuclase III, IDP90862,
csgid, structura genomics; 2.21A {Campylobacter jejuni
subsp}
Length = 248
Score = 187 bits (477), Expect = 5e-56
Identities = 68/255 (26%), Positives = 115/255 (45%), Gaps = 18/255 (7%)
Query: 203 YPQHPLQEQEPDGDRQWVEQSPLLKQLQYLEYSSGVIFNHIRLLARVFTTRSMGYTNLTL 262
+ H G QS +K ++ LE S F LL T +S +
Sbjct: 2 HHHHHHSSGVDLGTENLYFQSNAMKNIEKLEQSLTYEFKDKNLLIHALTHKSFKKSY--- 58
Query: 263 GSNQRLEFLGDTVLQLITSDYLYNHFPEHHEGHLSLLRSSLVNNRTQSVVCNDIGMPFFA 322
+N+RLEFLGD VL L+ +YL++ F + EG LS LR++LVN ++ + + N + + F
Sbjct: 59 -NNERLEFLGDAVLDLVVGEYLFHKFAKDAEGDLSKLRAALVNEKSFAKIANSLNLGDF- 116
Query: 323 NIINPKVDLKMKDR------ADLLEAFLGAMYIDKGMEACEQFCKVCFFPRLQYFILNQE 376
I+ + + +D LEA +GA++++ G E +
Sbjct: 117 -ILMSVAEENNGGKEKPSILSDALEAIIGAIHLEAGFEFAKTIALRLIEKNFPQIDAKIL 175
Query: 377 WNDPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNS 436
D K+KLQ+ P Y+ + GP + + + +A+ + LA+A S
Sbjct: 176 IKDYKTKLQEITQGKIG------QTPQYETVRAFGPDHLKQFEIALMLDGKELARAIAGS 229
Query: 437 IQQAEMNAAKVALQK 451
++A+ AAK+AL+K
Sbjct: 230 KKEAQQMAAKIALEK 244
Score = 81.5 bits (202), Expect = 1e-17
Identities = 25/94 (26%), Positives = 44/94 (46%), Gaps = 14/94 (14%)
Query: 98 QFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLEDFMLYAHGSDLCHEVEL 157
+ +LFH F EG L+ RAA+V + A +A + L DF+L + E
Sbjct: 72 DLVVGEYLFHKFAKDAEGDLSKLRAALVNEKSFAKIANSLNLGDFILMSVA-------EE 124
Query: 158 KHA-------MANCFEALMGALFLDGGIDVADQV 184
+ +++ EA++GA+ L+ G + A +
Sbjct: 125 NNGGKEKPSILSDALEAIIGAIHLEAGFEFAKTI 158
>3c4b_A Endoribonuclease dicer; RNAse, dsRNA binding protein, ATP-binding,
endonuclease, HEL hydrolase, nucleotide-binding,
phosphoprotein, RN binding; HET: MSE; 1.68A {Mus
musculus} PDB: 3c4t_A 2eb1_A
Length = 265
Score = 188 bits (478), Expect = 5e-56
Identities = 60/275 (21%), Positives = 100/275 (36%), Gaps = 52/275 (18%)
Query: 213 PDGDRQWVEQSPLLKQLQYLEYSSGVIFNHIRLLARVFTTRSMGYTNLTLGSNQRLEFLG 272
PD ++ + L+ + E F + L + FT S Y +T QRLEFLG
Sbjct: 2 PDAEK---TLNHLISGFETFEKKINYRFKNKAYLLQAFTHASYHYNTIT-DCYQRLEFLG 57
Query: 273 DTVLQLITSDYLYNHFPEHHEGHLSLLRSSLVNNRTQSVVCNDIGMPFFANIINPKVDLK 332
D +L + + +LY +H G L+ LRS+LVNN + + + ++P++
Sbjct: 58 DAILDYLITKHLYEDPRQHSPGVLTDLRSALVNNTIFASLAVKYDYHKYFKAVSPELFHV 117
Query: 333 MKDR------------------------------------ADLLEAFLGAMYIDKGMEAC 356
+ D D+ E+ GA+Y+D GM
Sbjct: 118 IDDFVKFQLEKNEMQGMDSELRRSEEDEEKEEDIEVPKAMGDIFESLAGAIYMDSGMSL- 176
Query: 357 EQFCKVCFFPRLQYFILNQEWNDPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSR 416
+ ++P +Q I N P+S +++ P T
Sbjct: 177 -EVVWQVYYPMMQPLIEKFSANVPRSPVRELLEME----------PETAKFSPAERTYDG 225
Query: 417 SYTVAVYFKNERLAKATGNSIQQAEMNAAKVALQK 451
V V + K G S + A+ AA+ AL+
Sbjct: 226 KVRVTVEVVGKGKFKGVGRSYRIAKSAAARRALRS 260
Score = 79.0 bits (195), Expect = 1e-16
Identities = 29/147 (19%), Positives = 53/147 (36%), Gaps = 37/147 (25%)
Query: 98 QFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLEDFMLYAHGS-------- 149
++ + HL+ G L R+A+V N A LA + +
Sbjct: 62 DYLITKHLYEDPRQHSPGVLTDLRSALVNNTIFASLAVKYDYHKYFKAVSPELFHVIDDF 121
Query: 150 ------------------------DLCHEVELKHAMANCFEALMGALFLDGGID--VADQ 183
+ ++E+ AM + FE+L GA+++D G+ V Q
Sbjct: 122 VKFQLEKNEMQGMDSELRRSEEDEEKEEDIEVPKAMGDIFESLAGAIYMDSGMSLEVVWQ 181
Query: 184 VFSSVLYKDNEVRFKQWMYYPQHPLQE 210
V+ ++ E K P+ P++E
Sbjct: 182 VYYPMMQPLIE---KFSANVPRSPVRE 205
>1o0w_A Ribonuclease III, RNAse III; TM1102, structural genomics, JCSG,
PSI, protein structure initiative, joint center for
structural genomics; 2.00A {Thermotoga maritima} SCOP:
a.149.1.1 d.50.1.1
Length = 252
Score = 182 bits (465), Expect = 3e-54
Identities = 59/243 (24%), Positives = 105/243 (43%), Gaps = 33/243 (13%)
Query: 227 KQLQYLEYSSGVIFNHIRLLARVFTTRSMGYTNLTLG-----SNQRLEFLGDTVLQLITS 281
K ++ + +G+ F + LL R S G SN++LEFLGD VL+L
Sbjct: 19 KIVEEFQKETGINFKNEELLFRALCHSSYANEQNQAGRKDVESNEKLEFLGDAVLELFVC 78
Query: 282 DYLYNHFPEHHEGHLSLLRSSLVNNRTQSVVCNDIGMPFFANIINPKVDLKM-------- 333
+ LY +PE G L+ ++S+ + ++V + + F L +
Sbjct: 79 EILYKKYPEAEVGDLARVKSAAASEEVLAMVSRKMNLGKF---------LFLGKGEEKTG 129
Query: 334 -KDR----ADLLEAFLGAMYIDKGMEACEQFCKVCFFPRLQYFILNQEWNDPKSKLQQCC 388
+DR AD EA L A+Y+D+G E ++ + F ++ + + D K+ LQ+
Sbjct: 130 GRDRDSILADAFEALLAAIYLDQGYEKIKELFEQEFEFYIEKIMKGEMLFDYKTALQEIV 189
Query: 389 LTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQQAEMNAAKVA 448
+ P Y ++ R + V V + +A G + ++AE AA++A
Sbjct: 190 QSEH------KVPPEYILVRTEKNDGDRIFVVEVRVNGKTIATGKGRTKKEAEKEAARIA 243
Query: 449 LQK 451
+K
Sbjct: 244 YEK 246
Score = 84.2 bits (209), Expect = 2e-18
Identities = 24/100 (24%), Positives = 45/100 (45%), Gaps = 14/100 (14%)
Query: 98 QFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLEDFMLYAHGSDLCHEVEL 157
+ L+ +P+ E G LA ++A + LA +++++ L F+ G E
Sbjct: 74 ELFVCEILYKKYPEAEVGDLARVKSAAASEEVLAMVSRKMNLGKFLFLGKG-------EE 126
Query: 158 KHA-------MANCFEALMGALFLDGGIDVADQVFSSVLY 190
K +A+ FEAL+ A++LD G + ++F
Sbjct: 127 KTGGRDRDSILADAFEALLAAIYLDQGYEKIKELFEQEFE 166
>2a11_A Ribonuclease III, RNAse III; nuclease domain, structural genomic
protein structure initiative; 2.10A {Mycobacterium
tuberculosis}
Length = 242
Score = 173 bits (442), Expect = 6e-51
Identities = 66/232 (28%), Positives = 98/232 (42%), Gaps = 15/232 (6%)
Query: 227 KQLQYLEYSSGVIFNHIRLLARVFTTRSMGYTNLTLGSNQRLEFLGDTVLQLITSDYLYN 286
+ Q L + GV LL+ T RS Y N L +N+RLEFLGD VL L +D L++
Sbjct: 5 RSRQPLLDALGVDLPD-ELLSLALTHRSYAYENGGLPTNERLEFLGDAVLGLTITDALFH 63
Query: 287 HFPEHHEGHLSLLRSSLVNNRTQSVVCNDIGMPFFANIIN-PKVDLKMKDR------ADL 339
P+ EG L+ LR+S+VN + + V + + + + AD
Sbjct: 64 RHPDRSEGDLAKLRASVVNTQALADVARRLCAEGLGVHVLLGRGEANTGGADKSSILADG 123
Query: 340 LEAFLGAMYIDKGMEACEQFCKVCFFPRLQYFILNQEWNDPKSKLQQCCLTLRTLDGGEP 399
+E+ LGA+Y+ GME + F P L D K+ LQ+
Sbjct: 124 MESLLGAIYLQHGMEKAREVILRLFGPLLDAAPTLGAGLDWKTSLQELTAARG------L 177
Query: 400 DIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQQAEMNAAKVALQK 451
P Y V GP + + +T V + G S ++AE AA A +
Sbjct: 178 GAPSYLVTST-GPDHDKEFTAVVVVMDSEYGSGVGRSKKEAEQKAAAAAWKA 228
Score = 78.0 bits (193), Expect = 2e-16
Identities = 31/103 (30%), Positives = 48/103 (46%), Gaps = 17/103 (16%)
Query: 98 QFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRI---GLEDFMLYAHGSDLCHE 154
+ LFH PD EG LA RA++V Q LA +A+R+ GL +L G
Sbjct: 54 GLTITDALFHRHPDRSEGDLAKLRASVVNTQALADVARRLCAEGLGVHVLLGRG------ 107
Query: 155 VELKHA-------MANCFEALMGALFLDGGIDVADQVFSSVLY 190
E +A+ E+L+GA++L G++ A +V +
Sbjct: 108 -EANTGGADKSSILADGMESLLGAIYLQHGMEKAREVILRLFG 149
>3rv0_A K. polysporus DCR1; RNAse III enzyme, RNA binding protein; 2.29A
{Vanderwaltozyma polyspora}
Length = 341
Score = 172 bits (438), Expect = 3e-49
Identities = 56/252 (22%), Positives = 95/252 (37%), Gaps = 39/252 (15%)
Query: 221 EQSPLLKQLQYLEYSSGVIFNHIRLLARVFTTRSMGYTNLTLG-------SNQRLEFLGD 273
+ + ++Y L F +S N L SN+RLEFLGD
Sbjct: 84 SNTDVDMFIKYPV------VYDENLENLAFMHKSFPNMNAHLNDAQKTQLSNERLEFLGD 137
Query: 274 TVLQLITSDYLYNHFPEHHEGHLSLLRSSLVNNRTQSVVCNDIGMPFFANIINPKVDLKM 333
+ L + S +Y FP +EG LS ++ S+VNN + +
Sbjct: 138 SWLGALVSYIVYTRFPSANEGMLSQMKESIVNNNNLFDWSTKLNFTKR--LQGNIATPTR 195
Query: 334 KDR-------ADLLEAFLGAMYIDK---GMEACEQFCKVCFFPRL----QYFILNQEWND 379
+ AD +EA++GA+ ID+ +++ + +L Q I +
Sbjct: 196 VVKDKMSKRYADCVEAYIGALVIDRFGTEFLDIKEWLEELSEKKLAKSSQMVIKEPLNKN 255
Query: 380 PKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQQ 439
K++L + Y+ + + P + V V + L +A GNSI++
Sbjct: 256 AKNELAE-----LLQINKLGHKLHYRKLTEMPP-----FRVEVKIGDILLDEAEGNSIRE 305
Query: 440 AEMNAAKVALQK 451
AE AA L+
Sbjct: 306 AEHRAAMKVLEN 317
Score = 81.0 bits (200), Expect = 7e-17
Identities = 19/98 (19%), Positives = 37/98 (37%), Gaps = 4/98 (4%)
Query: 98 QFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLEDFMLYAHGSDLCHEVEL 157
+ S ++ FP EG L+ + +IV N +L + ++ + + +
Sbjct: 141 GALVSYIVYTRFPSANEGMLSQMKESIVNNNNLFDWSTKLNFTKRLQGNIATPTRVVKDK 200
Query: 158 KHAM-ANCFEALMGALFLDG---GIDVADQVFSSVLYK 191
A+C EA +GAL +D + + K
Sbjct: 201 MSKRYADCVEAYIGALVIDRFGTEFLDIKEWLEELSEK 238
>2nug_A Ribonuclease III, RNAse III; dsRNA, RNA interference,
endonucleolytic cleavage, hydrolase/RNA complex; 1.70A
{Aquifex aeolicus} SCOP: a.149.1.1 d.50.1.1 PDB: 1yyw_A
2nue_A 2nuf_A 1yyk_A 1yz9_A 1yyo_A 2ez6_A 1rc7_A 1i4s_A
1jfz_A 1rc5_A
Length = 221
Score = 168 bits (427), Expect = 5e-49
Identities = 56/228 (24%), Positives = 91/228 (39%), Gaps = 16/228 (7%)
Query: 227 KQLQYLEYSSGVIFNHIRLLARVFTTRSMGYTNLTLGSNQRLEFLGDTVLQLITSDYLYN 286
K L+ LE G F LL + T S + LEFLGD ++ D L
Sbjct: 2 KMLEQLEKKLGYTFKDKSLLEKALTHVSYSKKE----HYETLEFLGDALVNFFIVDLLVQ 57
Query: 287 HFPEHHEGHLSLLRSSLVNNRTQSVVCNDIGMPFFANIINPKVDLKMKDRADLLEAFLGA 346
+ P EG LS L++ L++ +++ + + F I + + D+ EA A
Sbjct: 58 YSPNKREGFLSPLKAYLISEEFFNLLAQKLELHKF--IRIKRGKINETIIGDVFEALWAA 115
Query: 347 MYIDKGMEA--CEQFCKVCFFPRLQYFILNQEWN-DPKSKLQQCCLTLRTLDGGEPDIPI 403
+YID G +A + F + I D K+ LQ+ + P
Sbjct: 116 VYIDSGRDANFTRELFYKLFKEDILSAIKEGRVKKDYKTILQEITQKRW------KERPE 169
Query: 404 YKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQQAEMNAAKVALQK 451
Y++I GP + + + V K R G S ++AE AA+ ++
Sbjct: 170 YRLISVEGPHHKKKFIVEAKIKEYR-TLGEGKSKKEAEQRAAEELIKL 216
Score = 83.0 bits (206), Expect = 3e-18
Identities = 20/85 (23%), Positives = 37/85 (43%), Gaps = 8/85 (9%)
Query: 98 QFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLEDFMLYAHGSDLCHEVEL 157
F L P+ EG L+ +A ++ + LA+++ L F+ G ++
Sbjct: 48 NFFIVDLLVQYSPNKREGFLSPLKAYLISEEFFNLLAQKLELHKFIRIKRG-------KI 100
Query: 158 KHAM-ANCFEALMGALFLDGGIDVA 181
+ + FEAL A+++D G D
Sbjct: 101 NETIIGDVFEALWAAVYIDSGRDAN 125
>2qvw_A GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral twin, hydrolase;
3.00A {Giardia intestinalis} PDB: 2ffl_A
Length = 756
Score = 168 bits (427), Expect = 5e-45
Identities = 51/249 (20%), Positives = 83/249 (33%), Gaps = 20/249 (8%)
Query: 205 QHPLQEQEPDGDRQWVEQSPLLKQLQYLEYSSGVIFNHIRLLARVFTTRSMGYTNLT-LG 263
L + PD R + +Y ++G+ + R G ++
Sbjct: 281 ICALDKSFPDCGR--------IGGERYFAITAGLRLDQGRGRGLAGWRTPFGPFGVSHTD 332
Query: 264 SNQRLEFLGDTVLQLITSDYLYNHFPEHHEGHLSLLRSSLVNNRTQSVVCNDIGMPFFAN 323
QRLE LGD VL I + L FP+ G L L+ LV N + + +G+P A
Sbjct: 333 VFQRLELLGDAVLGFIVTARLLCLFPDASVGTLVELKMELVRNEALNYLVQTLGLPQLAE 392
Query: 324 IINPKVDLKMKDRADLLEAFLGAMYID-KGMEACEQFCKVCFFPRLQYFILNQEWNDPKS 382
N V K K AD+ E +G+++ G+ CE+F + D +
Sbjct: 393 FSNNLVA-KSKTWADMYEEIVGSIFTGPNGIYGCEEFLAKTLMSPEHSKTVGSACPDAVT 451
Query: 383 KLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQQAEM 442
K + + GE ++ + S + L + AE
Sbjct: 452 KAS------KRVCMGEAGAHEFRSLVDYACEQGISVFCSSRVSTMFLERLRD---IPAED 502
Query: 443 NAAKVALQK 451
L
Sbjct: 503 MLDWYRLGI 511
Score = 134 bits (339), Expect = 2e-33
Identities = 40/182 (21%), Positives = 62/182 (34%), Gaps = 24/182 (13%)
Query: 200 WMYYPQHPLQEQ-----------EPDGDRQWVEQSPLLKQLQYLEYSSGVIFNHIRLLAR 248
P P+ + E G + + + + L SG I IRLL
Sbjct: 582 LTETPTGPVASKVLALYEKILAYESSGGSKHIAAQTVSRSLAV-PIPSGTIPFLIRLLQI 640
Query: 249 VFTTRSMGYTNLTLGSNQRLEFLGDTVLQLITSDYLYNHFPEHHEGHLSLLRSSLVNNRT 308
T Q+LE LGD L+ + +L+ P EG L+ +R S N
Sbjct: 641 ALTPHV----------YQKLELLGDAFLKCSLALHLHALHPTLTEGALTRMRQSAETNSV 690
Query: 309 QSVVCNDIGMPFFANIINPKVDLKMKDR--ADLLEAFLGAMYIDKGMEACEQFCKVCFFP 366
+ II ++ + D EA L A+ + G EA F + P
Sbjct: 691 LGRLTKRFPSVVSEVIIESHPKIQPDSKVYGDTFEAILAAILLACGEEAAGAFVREHVLP 750
Query: 367 RL 368
++
Sbjct: 751 QV 752
Score = 85.8 bits (212), Expect = 1e-17
Identities = 19/95 (20%), Positives = 32/95 (33%), Gaps = 2/95 (2%)
Query: 98 QFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLEDFMLYAHGSDLCHEVEL 157
+ ++HL + P + EG L R + N L L KR +
Sbjct: 659 KCSLALHLHALHPTLTEGALTRMRQSAETNSVLGRLTKRFPSVVSEV--IIESHPKIQPD 716
Query: 158 KHAMANCFEALMGALFLDGGIDVADQVFSSVLYKD 192
+ FEA++ A+ L G + A +
Sbjct: 717 SKVYGDTFEAILAAILLACGEEAAGAFVREHVLPQ 751
Score = 83.1 bits (205), Expect = 8e-17
Identities = 22/95 (23%), Positives = 43/95 (45%), Gaps = 6/95 (6%)
Query: 98 QFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLEDFMLYAHGSDLCHEVEL 157
FI + L +FPD G L + +V+N+ L +L + +GL +++ V
Sbjct: 346 GFIVTARLLCLFPDASVGTLVELKMELVRNEALNYLVQTLGLPQLAEFSNN-----LVAK 400
Query: 158 KHAMANCFEALMGALFLD-GGIDVADQVFSSVLYK 191
A+ +E ++G++F GI ++ + L
Sbjct: 401 SKTWADMYEEIVGSIFTGPNGIYGCEEFLAKTLMS 435
>3o2r_A Ribonuclease III; structural genomics, center for structural
genomics of infec diseases, csgid, nuclease domain,
ribonuclase III; HET: MLZ; 1.25A {Campylobacter jejuni
subsp} PDB: 3o2r_B*
Length = 170
Score = 123 bits (310), Expect = 4e-33
Identities = 46/161 (28%), Positives = 76/161 (47%), Gaps = 12/161 (7%)
Query: 215 GDRQWVEQSPLLKQLQYLEYSSGVIFNHIRLLARVFTTRSMGYTNLTLGSNQRLEFLGDT 274
G QS +K ++ LE S F LL T +S + +N+RLEFLGD
Sbjct: 14 GTENLYFQSNAMKNIEKLEQSLTYEFKDKNLLIHALTHKSFKKSY----NNERLEFLGDA 69
Query: 275 VLQLITSDYLYNHFPEHHEGHLSLLRSSLVNNRTQSVVCNDIGMPFFANIINPKVDLKMK 334
VL L+ +YL++ F + EG LS LR++LVN ++ + + N + + F I+ +
Sbjct: 70 VLDLVVGEYLFHKFAKDAEGDLSKLRAALVNEKSFAKIANSLNLGDF--ILMSVAEENNG 127
Query: 335 DR------ADLLEAFLGAMYIDKGMEACEQFCKVCFFPRLQ 369
+ +D LEA +GA++++ G E +
Sbjct: 128 GKEKPSILSDALEAIIGAIHLEAGFEFAKTIALRLIEKNFP 168
Score = 80.7 bits (200), Expect = 5e-18
Identities = 25/87 (28%), Positives = 44/87 (50%)
Query: 98 QFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLEDFMLYAHGSDLCHEVEL 157
+ +LFH F EG L+ RAA+V + A +A + L DF+L + + E
Sbjct: 72 DLVVGEYLFHKFAKDAEGDLSKLRAALVNEKSFAKIANSLNLGDFILMSVAEENNGGKEK 131
Query: 158 KHAMANCFEALMGALFLDGGIDVADQV 184
+++ EA++GA+ L+ G + A +
Sbjct: 132 PSILSDALEAIIGAIHLEAGFEFAKTI 158
>3rv1_A K. polysporus DCR1; RNAse III enzyme, RNA binding protein; 1.98A
{Vanderwaltozyma polyspora}
Length = 246
Score = 119 bits (300), Expect = 7e-31
Identities = 37/145 (25%), Positives = 61/145 (42%), Gaps = 15/145 (10%)
Query: 239 IFNHIRLLARVFTTRSMGYTNLTLG-------SNQRLEFLGDTVLQLITSDYLYNHFPEH 291
+ L F +S N L SN+RLEFLGD+ L + S +Y FP
Sbjct: 96 VVYDENLENLAFMHKSFPNMNAHLNDAQKTQLSNERLEFLGDSWLGALVSYIVYTRFPSA 155
Query: 292 HEGHLSLLRSSLVNNRTQSVVCNDIGMPFFANIINPKVDLKMKDR-----ADLLEAFLGA 346
+EG LS ++ S+VNN + +KD+ AD ++A++GA
Sbjct: 156 NEGMLSQMKESIVNNNNLFDWSTKLNFTKRLQGNIATPTRVVKDKMSKRYADCVQAYIGA 215
Query: 347 MYIDK---GMEACEQFCKVCFFPRL 368
+ ID+ +++ + +L
Sbjct: 216 LVIDRFGTEFLDIKEWLEELSEKKL 240
Score = 80.6 bits (199), Expect = 2e-17
Identities = 18/98 (18%), Positives = 37/98 (37%), Gaps = 4/98 (4%)
Query: 98 QFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLEDFMLYAHGSDLCHEVEL 157
+ S ++ FP EG L+ + +IV N +L + ++ + + +
Sbjct: 141 GALVSYIVYTRFPSANEGMLSQMKESIVNNNNLFDWSTKLNFTKRLQGNIATPTRVVKDK 200
Query: 158 KHAM-ANCFEALMGALFLD---GGIDVADQVFSSVLYK 191
A+C +A +GAL +D + + K
Sbjct: 201 MSKRYADCVQAYIGALVIDRFGTEFLDIKEWLEELSEK 238
>2khx_A Ribonuclease 3; drosha, RNA binding domain, hydrolase, gene
regulation, NUCL protein, gene regulation,nuclear
protein; NMR {Homo sapiens}
Length = 85
Score = 108 bits (271), Expect = 1e-28
Identities = 53/87 (60%), Positives = 66/87 (75%), Gaps = 3/87 (3%)
Query: 378 NDPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSI 437
NDPKS+LQQCCLTLRT +G EPDIP+YK ++ VGP+++R+YTVAVYFK ER+ G SI
Sbjct: 1 NDPKSQLQQCCLTLRT-EGKEPDIPLYKTLQTVGPSHARTYTVAVYFKGERIGCGKGPSI 59
Query: 438 QQAEMNAAKVALQKCPSICPQLDHQKR 464
QQAEM AA AL+K + PQ+ H
Sbjct: 60 QQAEMGAAMDALEKY-NF-PQMHHHHH 84
>1x49_A Interferon-induced, double-stranded RNA- activated protein kinase;
structure genomics, DSRM domain, structural genomics,
NPPSFA; NMR {Mus musculus} SCOP: d.50.1.1
Length = 97
Score = 67.0 bits (164), Expect = 5e-14
Identities = 18/73 (24%), Positives = 27/73 (36%), Gaps = 7/73 (9%)
Query: 379 DPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQ 438
KL + YK + GP + R +T V + +A G S Q
Sbjct: 15 FYMDKLNKYRQMHGVA-------ITYKELSTSGPPHDRRFTFQVLIDEKEFPEAKGRSKQ 67
Query: 439 QAEMNAAKVALQK 451
+A AAK+A+
Sbjct: 68 EARNAAAKLAVDI 80
>3adj_A F21M12.9 protein; HYL1, miRNA processing, RNA binding protein, gene
regulation; 3.00A {Arabidopsis thaliana} PDB: 2l2m_A
Length = 76
Score = 65.0 bits (159), Expect = 1e-13
Identities = 14/71 (19%), Positives = 27/71 (38%), Gaps = 6/71 (8%)
Query: 381 KSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQQA 440
K+ LQ+ + IP+Y+ + +T V + A + + A
Sbjct: 7 KNLLQE--YAQKMNYA----IPLYQCQKVETLGRVTQFTCTVEIGGIKYTGAATRTKKDA 60
Query: 441 EMNAAKVALQK 451
E++A + AL
Sbjct: 61 EISAGRTALLA 71
>1uhz_A Staufen (RNA binding protein) homolog 2; DSRM, staufen homolog 2,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: d.50.1.1
Length = 89
Score = 65.0 bits (159), Expect = 2e-13
Identities = 17/78 (21%), Positives = 31/78 (39%), Gaps = 7/78 (8%)
Query: 374 NQEWNDPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKAT 433
+ + P S+L Q + P Y ++ G R + + V +A T
Sbjct: 2 SSGSSGPISRLAQIQQARK------EKEPDYILLSERGMPRRREFVMQVKV-GNEVATGT 54
Query: 434 GNSIQQAEMNAAKVALQK 451
G + + A+ NAA+ L +
Sbjct: 55 GPNKKIAKKNAAEAMLLQ 72
>2dix_A Interferon-inducible double stranded RNA- dependent protein kinase
activator A; structure genomics, DSRM domain,
hypothetical protein PRKRA; NMR {Homo sapiens} SCOP:
d.50.1.1
Length = 84
Score = 64.3 bits (157), Expect = 3e-13
Identities = 12/73 (16%), Positives = 26/73 (35%), Gaps = 8/73 (10%)
Query: 379 DPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQ 438
P L + + + + P+Y+ + ++T V + G S +
Sbjct: 9 TPIQVLHEYGMKTKNI-------PVYECERSDVQIHVPTFTFRVTV-GDITCTGEGTSKK 60
Query: 439 QAEMNAAKVALQK 451
A+ AA+ A+
Sbjct: 61 LAKHRAAEAAINI 73
>3llh_A RISC-loading complex subunit tarbp2; DSRBD, DSRM, microrna, RNA
binding protein; 2.14A {Homo sapiens}
Length = 90
Score = 63.9 bits (156), Expect = 4e-13
Identities = 17/73 (23%), Positives = 31/73 (42%), Gaps = 8/73 (10%)
Query: 379 DPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQ 438
P S LQ+ + P+Y +++ G + ++T V + G S +
Sbjct: 15 TPISLLQEYGTRIGKT-------PVYDLLKAEGQAHQPNFTFRVTV-GDTSCTGQGPSKK 66
Query: 439 QAEMNAAKVALQK 451
A+ AA+VAL+
Sbjct: 67 AAKHKAAEVALKH 79
>2cpn_A TAR RNA-binding protein 2; double-stranded RNA binding domain,
DSRBD, DSRM., structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: d.50.1.1
Length = 89
Score = 62.3 bits (152), Expect = 2e-12
Identities = 16/73 (21%), Positives = 30/73 (41%), Gaps = 7/73 (9%)
Query: 379 DPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQ 438
+P LQ+ + +P Y V + GP + + +T+ + +G S +
Sbjct: 17 NPVGALQELVVQKGW------RLPEYTVTQESGPAHRKEFTMTCRVERFI-EIGSGTSKK 69
Query: 439 QAEMNAAKVALQK 451
A+ NAA L +
Sbjct: 70 LAKRNAAAKMLLR 82
>2ljh_A Double-stranded RNA-specific editase ADAR; DSRBD, DSRBM, editing,
hydrolase; NMR {Drosophila melanogaster}
Length = 114
Score = 61.9 bits (150), Expect = 5e-12
Identities = 19/75 (25%), Positives = 31/75 (41%), Gaps = 9/75 (12%)
Query: 378 NDPKSKLQQCCLT-LRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNS 436
P+ K L LR IYK+ GP ++ +T++V + + G S
Sbjct: 32 RIPQPKNTVAMLNELRHG-------LIYKLESQTGPVHAPLFTISVEV-DGQKYLGQGRS 83
Query: 437 IQQAEMNAAKVALQK 451
+ A + AA AL+
Sbjct: 84 KKVARIEAAATALRS 98
>3adl_A RISC-loading complex subunit tarbp2; TRBP2, miRNA processing, gene
regulation-RNA complex; 2.20A {Homo sapiens}
Length = 88
Score = 60.8 bits (148), Expect = 7e-12
Identities = 15/73 (20%), Positives = 28/73 (38%), Gaps = 7/73 (9%)
Query: 379 DPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQ 438
LQ+ + +P Y V + GP + + +T+ + +G S +
Sbjct: 16 HEVGALQELVVQKGW------RLPEYTVTQESGPAHRKEFTMTCRVERFI-EIGSGTSKK 68
Query: 439 QAEMNAAKVALQK 451
A+ NAA L +
Sbjct: 69 LAKRNAAAKMLLR 81
>1x47_A DGCR8 protein; structural genomics, DSRM domain, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens} SCOP: d.50.1.1
Length = 98
Score = 60.6 bits (147), Expect = 8e-12
Identities = 16/82 (19%), Positives = 28/82 (34%), Gaps = 10/82 (12%)
Query: 371 FILNQEWNDPKSKLQQ-CCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERL 429
F++N L + L+ P+Y E P S + +V
Sbjct: 9 FVINPNGKSEVCILHEYMQRVLKVR-------PVYNFFECENP--SEPFGASVTIDGVTY 59
Query: 430 AKATGNSIQQAEMNAAKVALQK 451
T +S + A+ AA+ L+
Sbjct: 60 GSGTASSKKLAKNKAARATLEI 81
>3p1x_A Interleukin enhancer-binding factor 3; structural genomics,
PSI-biology, protein structure initiati northeast
structural genomics consortium, NESG; 1.90A {Homo
sapiens}
Length = 75
Score = 60.0 bits (146), Expect = 9e-12
Identities = 16/80 (20%), Positives = 36/80 (45%), Gaps = 12/80 (15%)
Query: 372 ILNQEWNDPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAK 431
IL + +P +L + L+ Y++I G ++ + + + V + + +
Sbjct: 1 ILTKHGKNPVMELNEKRRGLK-----------YELISETGGSHDKRFVMEVEV-DGQKFQ 48
Query: 432 ATGNSIQQAEMNAAKVALQK 451
G++ + A+ AA AL+K
Sbjct: 49 GAGSNKKVAKAYAALAALEK 68
>1ekz_A DSRBDIII, maternal effect protein (staufen); structure,
protein/RNA, protein DSRBD, RNA hairpin; NMR {Drosophila
melanogaster} SCOP: d.50.1.1 PDB: 1stu_A
Length = 76
Score = 58.9 bits (143), Expect = 2e-11
Identities = 12/73 (16%), Positives = 29/73 (39%), Gaps = 8/73 (10%)
Query: 379 DPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQ 438
P S++ + + +KV+ GP + +++ A + + GN +
Sbjct: 8 SPISQVHEIGIKRNM-------TVHFKVLREEGPAHMKNFITACIV-GSIVTEGEGNGKK 59
Query: 439 QAEMNAAKVALQK 451
++ AA+ L +
Sbjct: 60 VSKKRAAEKMLVE 72
>1qu6_A Protein kinase PKR; dsRNA-binding domain, solution structure,
transferase; NMR {Homo sapiens} SCOP: d.50.1.1 d.50.1.1
Length = 179
Score = 61.1 bits (148), Expect = 4e-11
Identities = 14/73 (19%), Positives = 28/73 (38%), Gaps = 7/73 (9%)
Query: 379 DPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQ 438
+L + Y+ + + GP + R +T V + G S +
Sbjct: 14 FFMEELNTYRQKQGV-------VLKYQELPNSGPPHDRRFTFQVIIDGREFPEGEGRSKK 66
Query: 439 QAEMNAAKVALQK 451
+A+ AAK+A++
Sbjct: 67 EAKNAAAKLAVEI 79
Score = 49.1 bits (117), Expect = 5e-07
Identities = 12/60 (20%), Positives = 22/60 (36%), Gaps = 6/60 (10%)
Query: 402 PIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQQAEMNAAKVALQK-----CPSIC 456
Y+ G + + + TG++ Q+A+ AAK+A + S C
Sbjct: 121 VNYEQCAS-GVHGPEGFHYKCKMGQKEYSIGTGSTKQEAKQLAAKLAYLQILSEETGSGC 179
>2dmy_A Spermatid perinuclear RNA-binding protein; DSRM domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.50.1.1
Length = 97
Score = 58.7 bits (142), Expect = 4e-11
Identities = 13/50 (26%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 402 PIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQQAEMNAAKVALQK 451
YK++ GP ++ +T++V + +A+G S + A+++ A LQ
Sbjct: 32 LQYKLLSQSGPVHAPVFTMSVDV-DGTTYEASGPSKKTAKLHVAVKVLQA 80
>1di2_A XLRBPA, double stranded RNA binding protein A; protein-RNA complex,
protein-RNA interactions, RNA-bining protein; 1.90A
{Xenopus laevis} SCOP: d.50.1.1
Length = 69
Score = 57.6 bits (140), Expect = 5e-11
Identities = 18/72 (25%), Positives = 29/72 (40%), Gaps = 7/72 (9%)
Query: 380 PKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQQ 439
P LQ+ + +P Y V + GP + R +T+ + +G S Q
Sbjct: 2 PVGSLQELAVQKGW------RLPEYTVAQESGPPHKREFTITCRVETFV-ETGSGTSKQV 54
Query: 440 AEMNAAKVALQK 451
A+ AA+ L K
Sbjct: 55 AKRVAAEKLLTK 66
>2b7t_A Double-stranded RNA-specific editase 1; RNA editing, RNA-binding
protein, hydrolase; NMR {Rattus norvegicus} SCOP:
d.50.1.1 PDB: 2l3c_A
Length = 73
Score = 57.3 bits (139), Expect = 6e-11
Identities = 16/74 (21%), Positives = 38/74 (51%), Gaps = 11/74 (14%)
Query: 379 DPKSKLQQCCLT-LRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSI 437
PK+ L Q L ++ Y ++ GP ++ + ++V N ++ + +G +
Sbjct: 5 LPKNALMQ--LNEIKPG-------LQYMLLSQTGPVHAPLFVMSVEV-NGQVFEGSGPTK 54
Query: 438 QQAEMNAAKVALQK 451
++A+++AA+ AL+
Sbjct: 55 KKAKLHAAEKALRS 68
>2yt4_A Protein DGCR8; DSRBD, RNA binding domain, RNA binding protein;
2.60A {Homo sapiens}
Length = 232
Score = 57.1 bits (137), Expect = 2e-09
Identities = 24/114 (21%), Positives = 40/114 (35%), Gaps = 9/114 (7%)
Query: 366 PRLQYFILNQEWNDPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFK 425
P + F++N L + R L P+Y E P S + +V
Sbjct: 10 PTKKEFVINPNGKSEVCILHEYMQ--RVLKV----RPVYNFFECENP--SEPFGASVTID 61
Query: 426 NERLAKATGNSIQQAEMNAAKVALQK-CPSICPQLDHQKRVIAKSIELQKHEGI 478
T +S + A+ AA+ L+ P Q +K ++ +E H I
Sbjct: 62 GVTYGSGTASSKKLAKNKAARATLEILIPDFVKQTSEEKPKDSEELEYFNHISI 115
Score = 31.6 bits (71), Expect = 0.44
Identities = 9/86 (10%), Positives = 22/86 (25%), Gaps = 8/86 (9%)
Query: 366 PRLQYFILNQEWNDPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFK 425
R+ P L +C + + V P ++ +
Sbjct: 118 SRVYELTSKAGLLSPYQILHECLKRNHGM-------GDTSIKFEVVPGKNQKSEYVMACG 170
Query: 426 NERLAKATGNSIQQAEMNAAKVALQK 451
+ + + + A++ LQ
Sbjct: 171 KHT-VRGWCKNKRVGKQLASQKILQL 195
>2b7v_A Double-stranded RNA-specific editase 1; RNA editing, RNA-binding
protein, hydrolase; NMR {Rattus norvegicus} SCOP:
d.50.1.1 PDB: 2l2k_B
Length = 71
Score = 53.0 bits (128), Expect = 2e-09
Identities = 13/73 (17%), Positives = 32/73 (43%), Gaps = 12/73 (16%)
Query: 379 DPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQ 438
+P L + L+ Y + G ++++S+ ++V + + + +G + +
Sbjct: 5 NPVMILNELRPGLK-----------YDFLSESGESHAKSFVMSVVV-DGQFFEGSGRNKK 52
Query: 439 QAEMNAAKVALQK 451
A+ AA+ AL
Sbjct: 53 LAKARAAQSALAT 65
>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 = 59.3 bits (143), Expect = 3e-09
Identities = 59/406 (14%), Positives = 117/406 (28%), Gaps = 145/406 (35%)
Query: 21 LSLCIIIPMTLH------QDEFKGHCLLFSTGAWQEAD--------GQFLVTWASQAYCN 66
L +++P Q++F + G + + G+FL Y +
Sbjct: 16 LEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFL------GYVS 69
Query: 67 YTI-------FVGVVLFVISVIQIYRMYMYIHKGNNFSQFITSIHLF-HVFPDIEEGGLA 118
+ F V+ ++ + Y+ +GN+ IH + L
Sbjct: 70 SLVEPSKVGQFDQVLNLCLTEFE--NCYL---EGND-------IHALAAKLLQENDTTLV 117
Query: 119 TYRAAIVQNQHLAHLAKRIGLEDFMLYAHGSDLCHEVELKHA--MA---------NCFEA 167
+++N A + + + S L V +A +A + FE
Sbjct: 118 K-TKELIKNYITARIMAKRPFDK----KSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEE 172
Query: 168 L-----MGALFLDGGIDVADQVFSSVLYKDNEVR--------FKQWMYYPQHPLQEQEPD 214
L + + I + + S ++ + +W+ P PD
Sbjct: 173 LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENP-----SNTPD 227
Query: 215 GDRQWVEQSPL------LKQL-QY------LEYSSGVIFNHIR--------LLARVFTTR 253
D ++ P+ + QL Y L ++ G + ++++ L+ V
Sbjct: 228 KD--YLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAE 285
Query: 254 SMGYTNLTLGSNQRLEFL-----------GDTVLQL-ITSDYLYN--------------- 286
+ + + + + + L +T L I D L N
Sbjct: 286 TDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLT 345
Query: 287 -------------HFPEHHEGHLSLLRSSLVNNRTQSVVCNDIGMP 319
H P + + SLVN VV G P
Sbjct: 346 QEQVQDYVNKTNSHLPA--GKQVEI---SLVNGAKNLVVS---GPP 383
Score = 41.2 bits (96), Expect = 0.001
Identities = 60/361 (16%), Positives = 111/361 (30%), Gaps = 136/361 (37%)
Query: 6 ILLLSQIAGYVIAWMLSLCIII---PMTLHQDEFKGHCLLFSTGAWQEADGQFLV----- 57
++ + Q+A YV+ ++ P L + KG +TG Q LV
Sbjct: 240 LIGVIQLAHYVVT-----AKLLGFTPGEL-RSYLKG-----ATGH-----SQGLVTAVAI 283
Query: 58 ----TWASQAYCNYTIFVGVVLFVISVIQIYRMYMYI----HKGNNFSQFITSIHLFHVF 109
+W S F +SV + + +I ++ + TS+ +
Sbjct: 284 AETDSWES--------------FFVSVRKAITVLFFIGVRCYEA--YPN--TSLPPSILE 325
Query: 110 PDIEEG-GLATYRAAI-------VQ------NQHLA-----HLAKRIGLEDFMLYAHGSD 150
+E G+ + +I VQ N HL ++ G ++ ++
Sbjct: 326 DSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQS 385
Query: 151 LCH-EVELKHAMANCFEALMGALFLDGGIDVADQVFSSVLYKDNEVRFKQWMYY-----P 204
L + L+ A A G+ DQ S + + + +++F + P
Sbjct: 386 LYGLNLTLRKAKA------------PSGL---DQ--SRIPFSERKLKFS--NRFLPVASP 426
Query: 205 QHPLQEQEPDGDRQWVEQSPLLKQ-----LQYLEYSSGVIFNHIRLLARVFTTRSMGYTN 259
H S LL + L + V FN + V+ T
Sbjct: 427 FH----------------SHLLVPASDLINKDLV-KNNVSFNAKDIQIPVYDTFD----- 464
Query: 260 LTLGSNQRL--EFLGDTVLQLITSDYLY----NHFPEHH-----EGHLSLLRSSLVNNRT 308
GS+ R+ + + ++ I + F H G S L L +
Sbjct: 465 ---GSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGL-GVLTHRNK 520
Query: 309 Q 309
Sbjct: 521 D 521
Score = 33.1 bits (75), Expect = 0.28
Identities = 19/123 (15%), Positives = 34/123 (27%), Gaps = 36/123 (29%)
Query: 96 FSQ---FITSIHLFHVFPDIEEGGLAT------------YRAAIVQNQHLAHLAKRIGLE 140
F+Q + F ++ GL Y A LA LA + +E
Sbjct: 1731 FTQPALTLMEKAAFED---LKSKGLIPADATFAGHSLGEYAA-------LASLADVMSIE 1780
Query: 141 DFM--LYAHGSDLCHEVE------LKHAMANCFEALMGALFLDGGIDVADQVFSSVLYKD 192
+ ++ G + V + M + A F + V V +
Sbjct: 1781 SLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASF---SQEALQYVVERVGKRT 1837
Query: 193 NEV 195
+
Sbjct: 1838 GWL 1840
Score = 30.4 bits (68), Expect = 2.2
Identities = 12/63 (19%), Positives = 23/63 (36%), Gaps = 15/63 (23%)
Query: 421 AVYFKNERLAKATGNSIQQAEMNAA---------KVALQKCPSICPQLDHQKRVIAKSIE 471
A+ + ER+ K TG ++ N AL + L+ K + I+
Sbjct: 1825 ALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDT---VTNVLNFIK---LQKID 1878
Query: 472 LQK 474
+ +
Sbjct: 1879 IIE 1881
>3adg_A F21M12.9 protein; HYL1, miRNA processing mechanism, RNA binding
protein, gene regulation; 1.70A {Arabidopsis thaliana}
PDB: 3adi_A
Length = 73
Score = 51.5 bits (124), Expect = 7e-09
Identities = 17/74 (22%), Positives = 35/74 (47%), Gaps = 8/74 (10%)
Query: 379 DPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERL-AKATGNSI 437
KS+LQ+ + P+Y++++ GP++ + V R + +
Sbjct: 4 VFKSRLQEYAQKYKL------PTPVYEIVKE-GPSHKSLFQSTVILDGVRYNSLPGFFNR 56
Query: 438 QQAEMNAAKVALQK 451
+ AE +AA+VAL++
Sbjct: 57 KAAEQSAAEVALRE 70
>2l33_A Interleukin enhancer-binding factor 3; structural genomics,
northeast structural genomics consortiu PSI-biology,
protein structure initiative, DRBM; NMR {Homo sapiens}
Length = 91
Score = 51.7 bits (124), Expect = 1e-08
Identities = 15/80 (18%), Positives = 35/80 (43%), Gaps = 12/80 (15%)
Query: 372 ILNQEWNDPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAK 431
+L + +P +L + R Y++I G ++ + + + V + + +
Sbjct: 11 MLTKHGKNPVMELNE----KRRG-------LKYELISETGGSHDKRFVMEVEV-DGQKFQ 58
Query: 432 ATGNSIQQAEMNAAKVALQK 451
G++ + A+ AA AL+K
Sbjct: 59 GAGSNKKVAKAYAALAALEK 78
>2l3j_A Double-stranded RNA-specific editase 1; editing, dsRNA recognition,
DSRBM, hydrolase-RNA complex; NMR {Rattus norvegicus}
Length = 236
Score = 54.9 bits (131), Expect = 1e-08
Identities = 24/160 (15%), Positives = 54/160 (33%), Gaps = 13/160 (8%)
Query: 292 HEGHLSLLRSSLVNNRTQSVVCNDIGMPFFANIINPKVDLKMKDRADLLEAFLGAMYIDK 351
E HL++ R+ VN S + F K + ++ ++F + +
Sbjct: 76 SEAHLAMGRTLSVNTDFTSDQADFPDTLFNGFETPDKSEPPFYVGSNGDDSFSSSGDVSL 135
Query: 352 GMEACEQFCKVCFFPRLQYFILNQEWNDPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVG 411
P + +P L + L+ Y + G
Sbjct: 136 SASPVPASLTQPPLP-IPPPFPPPSGKNPVMILNELRPGLK-----------YDFLSESG 183
Query: 412 PTNSRSYTVAVYFKNERLAKATGNSIQQAEMNAAKVALQK 451
++++S+ ++V + + +G + + A+ AA+ AL
Sbjct: 184 ESHAKSFVMSVVVDGQF-FEGSGRNKKLAKARAAQSALAT 222
Score = 47.6 bits (112), Expect = 3e-06
Identities = 17/80 (21%), Positives = 38/80 (47%), Gaps = 9/80 (11%)
Query: 379 DPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQ 438
PK+ L Q L + G Y ++ GP ++ + ++V N ++ + +G + +
Sbjct: 5 LPKNALMQ----LNEIKPG----LQYMLLSQTGPVHAPLFVMSVEV-NGQVFEGSGPTKK 55
Query: 439 QAEMNAAKVALQKCPSICPQ 458
+A+++AA+ AL+
Sbjct: 56 KAKLHAAEKALRSFVQFPNA 75
>1whq_A RNA helicase A; double-stranded RNA binding domain, DSRBD, DSRM,
riken structural genomics/proteomics initiative, RSGI,
structural genomics; NMR {Mus musculus} SCOP: d.50.1.1
PDB: 2rs6_A
Length = 99
Score = 49.5 bits (118), Expect = 7e-08
Identities = 13/79 (16%), Positives = 27/79 (34%), Gaps = 9/79 (11%)
Query: 374 NQEWNDPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNER-LAKA 432
+ + K+ L C + P Y++ VG N + + V +
Sbjct: 2 SSGSSGIKNFLYAWCGKRKMT-------PAYEIRA-VGNKNRQKFMCEVRVEGFNYAGMG 53
Query: 433 TGNSIQQAEMNAAKVALQK 451
+ + A+ NAA+ +
Sbjct: 54 NSTNKKDAQSNAARDFVNY 72
>1whn_A Hypothetical protein riken cDNA 2310016K04; double-stranded RNA
binding domain, DSRBD, DSRM, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: d.50.1.1
Length = 128
Score = 49.5 bits (118), Expect = 1e-07
Identities = 15/75 (20%), Positives = 26/75 (34%), Gaps = 10/75 (13%)
Query: 378 NDPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATG-NS 436
PK L + C + P+Y+ ++ R + V ++ S
Sbjct: 26 ITPKMCLLEWCRREKL------PQPVYETVQRTID---RMFCSVVTVAEQKYQSTLWDKS 76
Query: 437 IQQAEMNAAKVALQK 451
+ AE AA V L+
Sbjct: 77 KKLAEQTAAIVCLRS 91
>2l2n_A Hyponastic leave 1; DSRBD, miRNA, RNA binding protein, plant
protein; NMR {Arabidopsis thaliana}
Length = 103
Score = 48.7 bits (116), Expect = 2e-07
Identities = 17/74 (22%), Positives = 34/74 (45%), Gaps = 8/74 (10%)
Query: 379 DPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKA-TGNSI 437
KS+LQ+ + P+Y++++ GP++ + V R +
Sbjct: 18 VFKSRLQEYAQKYKL------PTPVYEIVKE-GPSHKSLFQSTVILDGVRYNSLPGFFNR 70
Query: 438 QQAEMNAAKVALQK 451
+ AE +AA+VAL++
Sbjct: 71 KAAEQSAAEVALRE 84
>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 = 50.6 bits (120), Expect = 1e-06
Identities = 53/338 (15%), Positives = 100/338 (29%), Gaps = 85/338 (25%)
Query: 117 LATYRAAIVQNQHLAHLAKRIGLEDFMLYAHGSDLCHEVELKHAMANCF---------EA 167
L T R V + A I L+ H S E+K + E
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLD------HHSMTLTPDEVKSLLLKYLDCRPQDLPREV 322
Query: 168 LMGALFLDGGIDVADQVFSSVLYKDNEVRFKQWMYYPQHPLQE--------QEPDGDRQW 219
L I + +D + W + L EP R+
Sbjct: 323 LTTNPRRLSII--------AESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM 374
Query: 220 VEQ-----------SPLLKQL--QYLEYSSGVIFNHIR---LLARVFTTRSMGYTNLTLG 263
++ + LL + ++ V+ N + L+ + ++ ++ L
Sbjct: 375 FDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLE 434
Query: 264 SNQRLE------------------FLGDTVLQLITSDYLYNHFPEH-----HEGHLSLLR 300
+LE F D ++ Y Y+H H H ++L R
Sbjct: 435 LKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFR 494
Query: 301 SSLVNNR-TQSVVCNDIGMPFFA--NIINPKVDLK-----MKDRADLLEAFLGAMYIDKG 352
++ R + + +D + A +I+N LK + D E + A I
Sbjct: 495 MVFLDFRFLEQKIRHD-STAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNA--ILDF 551
Query: 353 MEACEQFCKVCFFPRLQYFILNQE----WNDPKSKLQQ 386
+ E+ + L L E + + ++Q+
Sbjct: 552 LPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQR 589
Score = 46.8 bits (110), Expect = 2e-05
Identities = 62/445 (13%), Positives = 126/445 (28%), Gaps = 120/445 (26%)
Query: 91 HKGNNFSQFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLEDFMLYAHGSD 150
H ++ F T H + + DI L+ + A V N + +D +
Sbjct: 1 HHHHHHMDFETGEHQYQ-YKDI----LSVFEDAFVDNFDCKDV------QDMPKSILSKE 49
Query: 151 LC-HEVELKHAMANCFEALMGALFLDGGIDVADQVFSSVLYKDNEVRFKQWMYYPQHPLQ 209
H + K A++ + L ++ + VL + + ++ P++
Sbjct: 50 EIDHIIMSKDAVSGTL--RLFWTLLSKQEEMVQKFVEEVLRINYK-----FLM---SPIK 99
Query: 210 EQEPDGDRQWVEQSPLLKQLQYLEYSSGVIFNHIRLLARVFTTRSMGYTNLTLGSNQRLE 269
+ RQ P + Y+E ++N ++ A+ +R Y L
Sbjct: 100 TE----QRQ-----PSMMTRMYIEQRD-RLYNDNQVFAKYNVSRLQPYLKLR-------- 141
Query: 270 FLGDTVLQLITSDYLYNHFPEHHEGHLSLLRSSLVNNRTQSVVCNDIG----MPF----- 320
+L+L + + G L ++ + + VC M F
Sbjct: 142 ---QALLELRPAKNVLID------GVLGSGKTWVALD-----VCLSYKVQCKMDFKIFWL 187
Query: 321 -FANIINPKVDLKM------KDRADLLEAFLGAMYIDKGMEACEQFCKVCFFPRLQY--- 370
N +P+ L+M + + + I + + + + Y
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR-LLKSKPYENC 246
Query: 371 -FILNQEWNDPKS----KLQQCCLTLRT------LDGGEPDIPIYKVIEHVGPTNSRSYT 419
+L + K+ L C L T D + ++H T +
Sbjct: 247 LLVLLNVQ-NAKAWNAFNLS--CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEV 303
Query: 420 VAVYFKNERLAKATGNSIQQAEMNAAKVALQKCPSICP----------------QLDHQK 463
++ L K Q ++ SI D
Sbjct: 304 KSL------LLKYLDCRPQDLPREVLTTNPRRL-SIIAESIRDGLATWDNWKHVNCDKLT 356
Query: 464 RVIAKSIE-LQKHE--------GIF 479
+I S+ L+ E +F
Sbjct: 357 TIIESSLNVLEPAEYRKMFDRLSVF 381
>1t4o_A Ribonuclease III; RNT1P, DSRBD, RNA-binding, hydrolase; 2.50A
{Saccharomyces cerevisiae} SCOP: d.50.1.1 PDB: 1t4l_B
2lbs_B
Length = 117
Score = 46.2 bits (109), Expect = 2e-06
Identities = 18/98 (18%), Positives = 32/98 (32%), Gaps = 8/98 (8%)
Query: 379 DPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQ 438
+ K +L L G Y ++ + S L G +I+
Sbjct: 9 NAKRQLYS-------LIGYASLRLHYVTVKKPTAVDPNSIVECRVGDGTVLGTGVGRNIK 61
Query: 439 QAEMNAAKVALQKCPSICPQLDHQKRVIAKSIELQKHE 476
A + AA+ AL+ + Q+ I +S + K
Sbjct: 62 IAGIRAAENALRDKKML-DFYAKQRAAIPRSESVLKDP 98
>1t4n_A Ribonuclease III; DSRBD, RNA-binding, hydrolase; NMR {Saccharomyces
cerevisiae} SCOP: d.50.1.1
Length = 94
Score = 40.3 bits (94), Expect = 1e-04
Identities = 16/97 (16%), Positives = 29/97 (29%), Gaps = 13/97 (13%)
Query: 379 DPKSKLQQCCLTLRTLDGGEPDIPIYKVIEHVGPTNSRSYTVAVYFKNERLAKATGNSIQ 438
+ K +L L G Y ++ + S L G +I+
Sbjct: 7 NAKRQLYS-------LIGYASLRLHYVTVKKPTAVDPNSIVECRVGDGTVLGTGVGRNIK 59
Query: 439 QAEMNAAKVALQKCPSICPQLDHQKRVIAKSIELQKH 475
A + AA+ AL+ + ++ L H
Sbjct: 60 IAGIRAAENALRDKKML------DFYAKQRAAALGHH 90
>1u61_A Hypothetical protein; structural genomics, PSI, protein STRU
initiative, midwest center for structural genomics,
MCSG, U function; 2.15A {Bacillus cereus} SCOP:
a.149.1.1
Length = 138
Score = 39.9 bits (93), Expect = 4e-04
Identities = 19/113 (16%), Positives = 38/113 (33%), Gaps = 17/113 (15%)
Query: 268 LEFLGDTVLQLITSDYLYNHFPEHHEGHLSLLRSSLVNNRTQSVVCNDIGM-PFF----A 322
L ++GD V + +L L L +S V+ + Q+ V + F
Sbjct: 15 LAYMGDAVYEQYIRYHLLQKGK-VRPNQLHRLGTSFVSAKAQAKVVYHLLETAFLTEEEE 73
Query: 323 NIIN----------PK-VDLKMKDRADLLEAFLGAMYIDKGMEACEQFCKVCF 364
++ PK D++ + EA +G ++ E ++
Sbjct: 74 AVLRRGRNANSGTVPKNTDVQTYRHSTAFEALIGYHHLLNNRERLDEIVYKAI 126
Score = 36.4 bits (84), Expect = 0.006
Identities = 17/111 (15%), Positives = 33/111 (29%), Gaps = 14/111 (12%)
Query: 96 FSQFITSIHLFHVFPDIEEGGLATYRAAIVQNQHLAHLAKRIGLEDF------MLYAHGS 149
+ Q+I L + L + V + A + + F + G
Sbjct: 23 YEQYIRYHLLQKGKVRPNQ--LHRLGTSFVSAKAQAKVVYHLLETAFLTEEEEAVLRRGR 80
Query: 150 DLCHEVELKHA------MANCFEALMGALFLDGGIDVADQVFSSVLYKDNE 194
+ K+ + FEAL+G L + D++ + E
Sbjct: 81 NANSGTVPKNTDVQTYRHSTAFEALIGYHHLLNNRERLDEIVYKAIAVLEE 131
>2gsl_A Hypothetical protein; alpha-helical protein, structural genomics,
PSI, protein STR initiative; 2.60A {Fusobacterium
nucleatum subsp}
Length = 137
Score = 34.8 bits (80), Expect = 0.020
Identities = 24/112 (21%), Positives = 41/112 (36%), Gaps = 18/112 (16%)
Query: 268 LEFLGDTVLQLITSDYLYNHFPEHHEGHLSLLRSSLVNNRTQSVVCNDIGMPFFANII-- 325
L FLGD + +L Y ++ L+ + VN + QS++ I +
Sbjct: 18 LAFLGDAIWELEIRKYYLQ--FGYNIPTLNKYVKAKVNAKYQSLIYKKI-INDLDEEFKV 74
Query: 326 ------------NPK-VDLKMKDRADLLEAFLGAMYIDKGMEACEQFCKVCF 364
P+ + A LEA +GAMY+ K E ++ +
Sbjct: 75 IGKRAKNSNIKTFPRSCTVMEYKEATALEAIIGAMYLLKKEEEIKKIINIVI 126
Score = 31.4 bits (71), Expect = 0.32
Identities = 8/36 (22%), Positives = 19/36 (52%)
Query: 159 HAMANCFEALMGALFLDGGIDVADQVFSSVLYKDNE 194
+ A EA++GA++L + ++ + V+ + E
Sbjct: 96 YKEATALEAIIGAMYLLKKEEEIKKIINIVIKGELE 131
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 31.7 bits (71), Expect = 0.36
Identities = 10/27 (37%), Positives = 14/27 (51%), Gaps = 1/27 (3%)
Query: 205 QHPLQEQEPDGDRQWVE-QSPLLKQLQ 230
Q QEP+ R+W E Q L++L
Sbjct: 76 QADRLTQEPESIRKWREEQRKRLQELD 102
>3g85_A Transcriptional regulator (LACI family); transcription regulator,
PSI-II, structural genomics structure initiative; 1.84A
{Clostridium acetobutylicum atcc 824}
Length = 289
Score = 29.5 bits (67), Expect = 2.4
Identities = 3/28 (10%), Positives = 9/28 (32%), Gaps = 3/28 (10%)
Query: 302 SLVNNRTQS---VVCNDIGMPFFANIIN 326
S + + +DI + + +
Sbjct: 5 SKNSQSKPTIALYWSSDISVNIISRFLR 32
>3rze_A Histamine H1 receptor, lysozyme chimera; structural genomics,
PSI-biology, membrane protein, GPCR NET GPCR, hydrolase;
HET: 5EH D7V OLC; 3.10A {Homo sapiens}
Length = 452
Score = 28.9 bits (64), Expect = 4.3
Identities = 12/87 (13%), Positives = 28/87 (32%), Gaps = 26/87 (29%)
Query: 16 VIAWMLSLCIIIPMTLHQDEFKGHCLLFSTGAWQEADGQFLVTWASQAYCN------YTI 69
+ AW LS +IP+ W Q V + + + +
Sbjct: 130 LGAWFLSFLWVIPILG----------------WNHFMQQTSVRREDKCETDFYDVTWFKV 173
Query: 70 FVGVVLF---VISVIQIY-RMYMYIHK 92
++ F + ++ Y ++Y + +
Sbjct: 174 MTAIINFYLPTLLMLWFYAKIYKAVRQ 200
>3egc_A Putative ribose operon repressor; structural genomics, unknown
function, DNA-binding, transcri transcription
regulation, PSI-2; 2.35A {Burkholderia thailandensis}
Length = 291
Score = 28.3 bits (64), Expect = 6.4
Identities = 8/26 (30%), Positives = 14/26 (53%), Gaps = 2/26 (7%)
Query: 302 SLVNNRTQS--VVCNDIGMPFFANII 325
SL + R+ ++ +DI FFA +
Sbjct: 2 SLRSKRSNVVGLIVSDIENVFFAEVA 27
>3kke_A LACI family transcriptional regulator; structural genomics,
DNA-binding, transcription regulation, PSI-2; 2.20A
{Mycobacterium smegmatis str}
Length = 303
Score = 28.3 bits (64), Expect = 7.1
Identities = 5/26 (19%), Positives = 15/26 (57%), Gaps = 2/26 (7%)
Query: 302 SLVNNRTQS--VVCNDIGMPFFANII 325
+L ++R+ + ++ D+ FA++
Sbjct: 9 ALRHSRSGTIGLIVPDVNNAVFADMF 34
>1dbq_A Purine repressor; transcription regulation, DNA-binding regulatory
protein; 2.20A {Escherichia coli} SCOP: c.93.1.1 PDB:
1jhz_A
Length = 289
Score = 27.9 bits (63), Expect = 7.5
Identities = 9/26 (34%), Positives = 13/26 (50%), Gaps = 2/26 (7%)
Query: 302 SLVNNRTQS--VVCNDIGMPFFANII 325
SL N T+S ++ +FA II
Sbjct: 1 SLKVNHTKSIGLLATSSEAAYFAEII 26
>3cs3_A Sugar-binding transcriptional regulator, LACI FAM; structural
genomics, sugar-binding transcriptional regulator
structure initiative; 2.40A {Enterococcus faecalis}
Length = 277
Score = 27.9 bits (63), Expect = 7.6
Identities = 7/27 (25%), Positives = 11/27 (40%), Gaps = 2/27 (7%)
Query: 302 SLVNNRTQS--VVCNDIGMPFFANIIN 326
SL +T V D G F+ ++
Sbjct: 2 SLKRRQTNIIGVYLADYGGSFYGELLE 28
>3sgi_A DNA ligase; HET: DNA AMP; 3.50A {Mycobacterium tuberculosis}
Length = 615
Score = 28.3 bits (64), Expect = 7.6
Identities = 13/43 (30%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 407 IEHVGPTNSRSYTVAVYFKN-ERLAKATGNSIQQAEMNAAKVA 448
I HVGPT +R +A F + + +A A+ + + E +A
Sbjct: 534 IRHVGPTAAR--ALATEFGSLDAIAAASTDQLAAVEGVGPTIA 574
>3bil_A Probable LACI-family transcriptional regulator; structural
genomics, unknown function, PSI-2, protein structure
initiative; 2.50A {Corynebacterium glutamicum atcc
13032}
Length = 348
Score = 27.9 bits (63), Expect = 8.4
Identities = 5/26 (19%), Positives = 15/26 (57%), Gaps = 2/26 (7%)
Query: 302 SLVNNRTQS--VVCNDIGMPFFANII 325
+L ++R+ + V+ + +FA ++
Sbjct: 60 ALRSSRSNTIGVIVPSLINHYFAAMV 85
>3clk_A Transcription regulator; 11017J, PSI-II, NYSGXRC, dimer, structural
genomics, protein structure initiative; 2.08A
{Lactobacillus plantarum WCFS1}
Length = 290
Score = 27.9 bits (63), Expect = 8.7
Identities = 6/27 (22%), Positives = 11/27 (40%), Gaps = 2/27 (7%)
Query: 302 SLVNNRTQS--VVCNDIGMPFFANIIN 326
SLV + V + + F I++
Sbjct: 2 SLVKKSSNVIAAVVSSVRTNFAQQILD 28
>2ks9_A Substance-P receptor; water, autodock, NK1, neuropeptide
receptor-NEU complex; NMR {Homo sapiens} PDB: 2ksa_A
2ksb_A
Length = 364
Score = 28.1 bits (63), Expect = 9.0
Identities = 12/75 (16%), Positives = 26/75 (34%), Gaps = 7/75 (9%)
Query: 16 VIAWMLSLCIIIPMTLHQDEFKGHCLLFSTGAWQEADGQFLVTWASQAYCNYTIFVGVVL 75
+ W+L+L + P + + W E + Y I V V++
Sbjct: 152 CVIWVLALLLAFPQGYYSTTETMPSRVVCMIEWPEHPNKIYEKV-------YHICVTVLI 204
Query: 76 FVISVIQIYRMYMYI 90
+ + ++ I Y +
Sbjct: 205 YFLPLLVIGYAYTVV 219
>3qio_A GAG-POL polyprotein; RNAse H, inhibitor, nuclease, transferase,
hydrolase- complex; HET: QID; 1.40A {Hiv-1 M} PDB:
3qin_A* 3hyf_A* 1o1w_A 3lp3_A* 1hrh_A 3k2p_A* 1rdh_A
Length = 150
Score = 27.1 bits (61), Expect = 9.3
Identities = 6/17 (35%), Positives = 9/17 (52%)
Query: 438 QQAEMNAAKVALQKCPS 454
Q+ E+ A +ALQ
Sbjct: 50 QKTELQAIYLALQDSGL 66
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
0.324 0.138 0.426
Gapped
Lambda K H
0.267 0.0536 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,469,998
Number of extensions: 505126
Number of successful extensions: 1168
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1093
Number of HSP's successfully gapped: 83
Length of query: 550
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 452
Effective length of database: 3,965,535
Effective search space: 1792421820
Effective search space used: 1792421820
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 60 (27.3 bits)