RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7437
(279 letters)
>3sde_A Paraspeckle component 1; RRM, anti parallel right handed
coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A
{Homo sapiens} PDB: 3sde_B
Length = 261
Score = 125 bits (316), Expect = 6e-35
Identities = 68/141 (48%), Positives = 101/141 (71%), Gaps = 1/141 (0%)
Query: 2 NIERAVVLVDDRGNSKNEGIIEFTRKPAAAQALKRCQDGVFFLTQSLKPVIVEPLDLVDD 61
+E+AVV+VDDRG + +G +EF KP A +AL+RC DG F LT + +PVIVEP++ DD
Sbjct: 122 PVEKAVVVVDDRGRATGKGFVEFAAKPPARKALERCGDGAFLLTTTPRPVIVEPMEQFDD 181
Query: 62 EEGLSERTVSKKSSDYFKQRSIGPRFATIGSFEFEYGTRWKQLYELYKQKEEALQKELKL 121
E+GL E+ + +K+ Y K+R PRFA G+FEFEY +RWK L E+ KQ+ E + + ++
Sbjct: 182 EDGLPEKLM-QKTQQYHKEREQPPRFAQPGTFEFEYASRWKALDEMEKQQREQVDRNIRE 240
Query: 122 EEEKLEAQMEFARYENETEIL 142
+EKLEA+ME AR+E++ ++
Sbjct: 241 AKEKLEAEMEAARHEHQLMLM 261
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 52.0 bits (125), Expect = 9e-08
Identities = 31/150 (20%), Positives = 62/150 (41%), Gaps = 15/150 (10%)
Query: 102 KQLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLE 161
+++ E K+ + L+K LE E + ++ E LR E + A + L L+
Sbjct: 935 RKIDEQNKEYKSLLEKMNNLEITY---STETEKLRSDVERLRMSE-EEAKNATNRVLSLQ 990
Query: 162 EEKLEAQMEFARYENETEILREQLRQREADRERQ-----------KQEWELKERHAEEQR 210
EE + + E + + E + + E + + + E+ K E E R +Q
Sbjct: 991 EEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELNRRIHDQA 1050
Query: 211 RCDEEAMRRQTEEIHLRMQQQDEELRRRHQ 240
+ E M ++ E +++ + R R+Q
Sbjct: 1051 KEITETMEKKLVEETKQLELDLNDERLRYQ 1080
Score = 47.4 bits (113), Expect = 3e-06
Identities = 20/143 (13%), Positives = 50/143 (34%), Gaps = 3/143 (2%)
Query: 100 RWKQLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELK 159
+ + E ++ A++ + R L+ R + + K+LK
Sbjct: 851 GYLVRNKYQMMLREHKSIIIQKHVRGWLARVHYHRTLKAIVYLQCCYRRMMAKRELKKLK 910
Query: 160 LEEEKLEAQMEFARYENETEILREQLRQREADRERQKQEWELKERHAEEQRRCDEEAMRR 219
+E +E + E +I QL+++ ++ ++ + K + E + E +R
Sbjct: 911 IEARSVERYKK-LHIGLENKI--MQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRS 967
Query: 220 QTEEIHLRMQQQDEELRRRHQEN 242
E + + ++ R
Sbjct: 968 DVERLRMSEEEAKNATNRVLSLQ 990
Score = 45.5 bits (108), Expect = 1e-05
Identities = 22/133 (16%), Positives = 55/133 (41%), Gaps = 3/133 (2%)
Query: 110 QKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLEEEKLEAQM 169
+ K+LK+E +E + E +I++ + + K L + LE
Sbjct: 900 MMAKRELKKLKIEARSVERYKK-LHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITY 958
Query: 170 EFARYENETEILREQLRQREADRERQKQEWELKERHAEEQRRCDE-EAMRRQTEEIHLRM 228
+ +++ R ++ + EA + + L+E A+ ++ + + ++ EE +
Sbjct: 959 STETEKLRSDVERLRMSEEEA-KNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKY 1017
Query: 229 QQQDEELRRRHQE 241
+ + E+L +E
Sbjct: 1018 KHETEQLVSELKE 1030
Score = 40.1 bits (94), Expect = 6e-04
Identities = 22/149 (14%), Positives = 57/149 (38%), Gaps = 10/149 (6%)
Query: 98 GTRWKQLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKE 157
++ Y+ + ALQ L+ + + QM E+++ I+++ ++
Sbjct: 828 MYVVRKRYQCMRDATIALQALLRGYLVRNKYQMM--LREHKSIIIQKHVRGWLARVHYHR 885
Query: 158 LKLEEEKLEAQMEFARYENETEILREQLRQREADRERQKQEWELKERHAEEQRRCDEE-- 215
L+ + E + L+ + R E ++ L+ + + QR+ DE+
Sbjct: 886 TLKAIVYLQCCYRRMMAKRELKKLKIEARSVERYKKLHIG---LENKIMQLQRKIDEQNK 942
Query: 216 ---AMRRQTEEIHLRMQQQDEELRRRHQE 241
++ + + + + E+LR +
Sbjct: 943 EYKSLLEKMNNLEITYSTETEKLRSDVER 971
Score = 38.2 bits (89), Expect = 0.003
Identities = 20/149 (13%), Positives = 51/149 (34%), Gaps = 19/149 (12%)
Query: 93 FEFEYGTRWKQLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEE 152
F TR + + +++ ++ + + + Q Y + E
Sbjct: 810 ATFLRRTRAAIIIQKFQRMYVVRKRYQCMRDATIALQALLRGYLVRNKYQMMLR-----E 864
Query: 153 ALQKELKLEEEKLEAQMEFARYENETEILREQLRQREADRERQKQEWELKERHAEEQRRC 212
++ A++ + R L+ R+ A RE +K + E R
Sbjct: 865 HKSIIIQKHVRGWLARVHYHRTLKAIVYLQCCYRRMMAKRELKKLK--------IEARSV 916
Query: 213 DEEAMRRQTEEIHLRMQQQDEELRRRHQE 241
+ +++H+ ++ + +L+R+ E
Sbjct: 917 ERY------KKLHIGLENKIMQLQRKIDE 939
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 50.2 bits (120), Expect = 4e-07
Identities = 30/148 (20%), Positives = 67/148 (45%), Gaps = 10/148 (6%)
Query: 102 KQLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEE--ALQKELK 159
+Q+ +L +Q EE KL+ EK+ A + + E++ I+ ++ + +E L++ +
Sbjct: 955 QQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVS 1014
Query: 160 LEEEKLEAQME----FARYENETEILREQLRQREADRERQKQEWELKERHAEEQRRCDEE 215
L + E + +N+ E + +L R E+ +QE E +R E +
Sbjct: 1015 DLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESS---- 1070
Query: 216 AMRRQTEEIHLRMQQQDEELRRRHQENS 243
+ Q E+ ++ + +L ++ +E
Sbjct: 1071 DLHEQIAELQAQIAELKAQLAKKEEELQ 1098
Score = 49.4 bits (118), Expect = 6e-07
Identities = 29/149 (19%), Positives = 60/149 (40%), Gaps = 11/149 (7%)
Query: 94 EFEYGTRWKQLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEA 153
E + EL + E + + EE + Q E + + + L E+ +EE
Sbjct: 912 EEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQ----LEEE 967
Query: 154 LQKELKLEEEKLEAQMEFARYENETEILREQLRQREADRERQKQEWELKERHAEEQRRCD 213
KL+ EK+ A + + E++ I+ +Q + +R+ L+ER ++
Sbjct: 968 EAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERK------LLEERVSDLTTNLA 1021
Query: 214 E-EAMRRQTEEIHLRMQQQDEELRRRHQE 241
E E + ++ + + EL R ++
Sbjct: 1022 EEEEKAKNLTKLKNKHESMISELEVRLKK 1050
Score = 48.7 bits (116), Expect = 1e-06
Identities = 29/148 (19%), Positives = 62/148 (41%), Gaps = 22/148 (14%)
Query: 110 QKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLEEEKLEAQM 169
+EE K L + K E+ + E E+ ++E + +E + + KLE E +
Sbjct: 1021 AEEEEKAKNLTKLKNKHESMIS------ELEVRLKKEEKSRQELEKIKRKLEGESSDLHE 1074
Query: 170 EFARYENETEILREQLRQREADRER---------------QKQEWELKERHAEEQRRCDE 214
+ A + + L+ QL ++E + + K+ EL+ ++ Q +
Sbjct: 1075 QIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLES 1134
Query: 215 E-AMRRQTEEIHLRMQQQDEELRRRHQE 241
E A R + E+ + ++ E L+ ++
Sbjct: 1135 EKAARNKAEKQKRDLSEELEALKTELED 1162
Score = 48.3 bits (115), Expect = 2e-06
Identities = 27/139 (19%), Positives = 58/139 (41%), Gaps = 6/139 (4%)
Query: 102 KQLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLE 161
+L + K ++E + + KLE E + + A + + L+ + + EE +LE
Sbjct: 1046 VRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLE 1105
Query: 162 EEKLEAQM---EFARYENETEILREQLRQREADRER-QKQEWELKERHAEEQRRCDE--E 215
+E + + E+ L+E L +A R + +KQ+ +L E + ++ +
Sbjct: 1106 DETSQKNNALKKIRELESHISDLQEDLESEKAARNKAEKQKRDLSEELEALKTELEDTLD 1165
Query: 216 AMRRQTEEIHLRMQQQDEE 234
Q E + D++
Sbjct: 1166 TTATQQELRGSDYKDDDDK 1184
Score = 44.1 bits (104), Expect = 4e-05
Identities = 27/151 (17%), Positives = 66/151 (43%), Gaps = 9/151 (5%)
Query: 96 EYGTRWKQLYELYKQKEEALQK-ELKLEEEKLEAQMEFARYENETEILRERECRFVEEAL 154
++ E ++ E L++ E K + E + + + ETE+ E E V A
Sbjct: 861 AKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRLAA 920
Query: 155 QKELKLEEEKLEAQMEFARYENETEILREQ---LRQREADRERQKQEWELKERHAEEQRR 211
+K+ +LEE E + E ++ L+ + ++Q+ D E Q +E E + + ++
Sbjct: 921 KKQ-ELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKV 979
Query: 212 CDEEAMRRQTEEIHLRMQQQDEELRRRHQEN 242
+ +++ ++ + +++ + +E
Sbjct: 980 TADGKIKKMEDD----ILIMEDQNNKLTKER 1006
Score = 41.7 bits (98), Expect = 2e-04
Identities = 30/143 (20%), Positives = 63/143 (44%), Gaps = 6/143 (4%)
Query: 100 RWKQLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELK 159
W L+ + ++E +++ + E Q R + L+E E + L +E
Sbjct: 838 PWMXLFFXIXPLLKVTRQEEEMQAKDEELQRTKERQQKAEAELKELEQKHT--QLCEEKN 895
Query: 160 LEEEKLEAQMEFARYENETEILREQLRQREADRERQKQEWELKERHAEEQRRCDEEAMRR 219
L +EKL+A+ E E +R +L ++ + E E E + EE+ + + ++
Sbjct: 896 LLQEKLQAETELYAEAEE---MRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKK 952
Query: 220 QTEEI-HLRMQQQDEELRRRHQE 241
+++ L Q ++EE R+ +
Sbjct: 953 MQQQMLDLEEQLEEEEAARQKLQ 975
Score = 39.8 bits (93), Expect = 8e-04
Identities = 21/156 (13%), Positives = 55/156 (35%), Gaps = 16/156 (10%)
Query: 88 ATIGSFEFEYGTRWKQLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILREREC 147
A + E T ++ ++ + KL +E+ + +
Sbjct: 969 AARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLA------- 1021
Query: 148 RFVEEALQKELKLEEEKLEAQMEFARYENETEILREQLRQREADRERQKQEWELKERHAE 207
EE K L + K E+ + E E+ ++ + + E+ K++ E +
Sbjct: 1022 --EEEEKAKNLTKLKNKHESMIS------ELEVRLKKEEKSRQELEKIKRKLEGESSDLH 1073
Query: 208 EQRRCDEEAMRRQTEEIHLRMQQQDEELRRRHQENS 243
EQ + +A + + + +++ + R ++ +
Sbjct: 1074 EQIA-ELQAQIAELKAQLAKKEEELQAALARLEDET 1108
Score = 36.0 bits (83), Expect = 0.013
Identities = 28/154 (18%), Positives = 60/154 (38%), Gaps = 15/154 (9%)
Query: 102 KQLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLE 161
K + E + K E+ + E + + E E+ L E+ + + + +L
Sbjct: 1032 KLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLA 1091
Query: 162 EEKLEAQMEFARYENETEILREQLRQREADRERQKQEWELKERHAEEQRRCDE------- 214
+++ E Q AR E+ET L++ RE + +L+E E+ ++
Sbjct: 1092 KKEEELQAALARLEDETSQKNNALKKI---RELESHISDLQEDLESEKAARNKAEKQKRD 1148
Query: 215 -----EAMRRQTEEIHLRMQQQDEELRRRHQENS 243
EA++ + E+ Q E ++++
Sbjct: 1149 LSEELEALKTELEDTLDTTATQQELRGSDYKDDD 1182
Score = 28.3 bits (63), Expect = 3.6
Identities = 15/97 (15%), Positives = 38/97 (39%), Gaps = 10/97 (10%)
Query: 99 TRWKQLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKEL 158
E ++ K+++ +LE+ + + + ++ E+ R E +++L
Sbjct: 1098 QAALARLEDETSQKNNALKKIR----ELESHIS----DLQEDLESEKAARNKAEKQKRDL 1149
Query: 159 KLEEEKLEAQMEFARYENETEILREQLRQREADRERQ 195
E E L+ ++E + T +E D + +
Sbjct: 1150 SEELEALKTELE--DTLDTTATQQELRGSDYKDDDDK 1184
>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 = 47.2 bits (111), Expect = 4e-06
Identities = 28/258 (10%), Positives = 65/258 (25%), Gaps = 75/258 (29%)
Query: 4 ERAVVLVDDRGNSKNEGIIEFTRKPAAAQALK-RCQDGVFFLTQ------SLKPVIVEPL 56
E ++++ + N+K A C+ + T+ L +
Sbjct: 244 ENCLLVLLNVQNAK---AWN---------AFNLSCK--ILLTTRFKQVTDFLSAATTTHI 289
Query: 57 DLVDDEEGLSERTVSKKSSDYFKQR---------SIGPR-FATIGSFEFEYGTRWKQ-LY 105
L L+ V Y R + PR + I + W +
Sbjct: 290 SLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKH 349
Query: 106 ELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLEEEKL 165
+ ++ L LE ++ + + L
Sbjct: 350 VNCDKLTTIIESSL----NVLEPAEYRKMFD-RLSVFPP------------SAHIPTILL 392
Query: 166 E---AQMEFARYENETEILREQLRQREADRERQKQEWELKERHAEEQRRCDEEAMRRQTE 222
+ +++ ++ +L + L E+ +E
Sbjct: 393 SLIWFDVI----KSDVMVVVNKLHKYS-----------LVEKQPKE--------STISIP 429
Query: 223 EIHLRMQQQDEELRRRHQ 240
I+L ++ + E H+
Sbjct: 430 SIYLELKVKLENEYALHR 447
Score = 42.9 bits (100), Expect = 9e-05
Identities = 23/138 (16%), Positives = 49/138 (35%), Gaps = 27/138 (19%)
Query: 137 NETEILRERECRFVEEALQKELKLEEEKLEAQMEFARYENETEILREQLRQREADR---- 192
E + +C+ V++ + L EE I+ + R
Sbjct: 25 FEDAFVDNFDCKDVQDMPKSILSKEEID--------------HIIMSKDAVSGTLRLFWT 70
Query: 193 ERQKQEWELKERHAEEQRRCD----EEAMRRQTEEIHLRMQQQDEELRRRHQENSIFMQV 248
KQE E+ ++ EE R + ++ + + + + E+ R + +N +F +
Sbjct: 71 LLSKQE-EMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKY 129
Query: 249 IVW----LGDLKQGVYQL 262
V L+Q + +L
Sbjct: 130 NVSRLQPYLKLRQALLEL 147
Score = 39.1 bits (90), Expect = 0.002
Identities = 30/255 (11%), Positives = 70/255 (27%), Gaps = 93/255 (36%)
Query: 95 FEYGTRW-------------KQLYELYKQKEEALQK--------ELKLEEEK--LEAQME 131
++ W + L +L Q + +L++ + L ++
Sbjct: 180 MDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLK 239
Query: 132 FARYENETEILRE-----------RECR------------FVEEALQKELKLEEEKL--- 165
YEN +L C+ F+ A + L+ +
Sbjct: 240 SKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT 299
Query: 166 EAQME--FARY-ENETEILREQLRQR---------EADRERQK--QEWELKERHAEEQRR 211
+++ +Y + + L ++ E+ R+ W+
Sbjct: 300 PDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWK--------HVN 351
Query: 212 CDEEAMRRQTEEIHLRMQQQD-EELRRRHQENSIF-------MQV--IVWLGDLKQGVYQ 261
CD + T I + + E R+ S+F + ++W +K V
Sbjct: 352 CD-----KLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMV 406
Query: 262 LGLTEGPFICECNNK 276
+ + +
Sbjct: 407 -------VVNKLHKY 414
Score = 30.6 bits (68), Expect = 0.73
Identities = 9/55 (16%), Positives = 20/55 (36%), Gaps = 7/55 (12%)
Query: 103 QLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKE 157
+ Y+ Y + E + A ++F + E ++ + + AL E
Sbjct: 528 KFYKPYICDNDPKY------ERLVNAILDFLP-KIEENLICSKYTDLLRIALMAE 575
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 42.7 bits (100), Expect = 1e-04
Identities = 36/200 (18%), Positives = 66/200 (33%), Gaps = 59/200 (29%)
Query: 23 EFTRKPAAAQALK-------RCQDGVFFLTQSLKPVIVEPLDLVDDEEG-----LS---- 66
F + +A+ RC + + SL P I+E D +++ EG LS
Sbjct: 291 SFFV--SVRKAITVLFFIGVRCYEA--YPNTSLPPSILE--DSLENNEGVPSPMLSISNL 344
Query: 67 -----ERTVSKKSSDYFKQRSI------GPRFATIGSFEFEYGTRWKQLYELYKQ--KEE 113
+ V+K +S + + G + + G + LY L K +
Sbjct: 345 TQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVS------GPP-QSLYGLNLTLRKAK 397
Query: 114 AL----QKELKLEEEKLEAQMEF----ARYENETEILRERECRFVEEALQKELKLEEEKL 165
A Q + E KL+ F + + + +L + + K+L
Sbjct: 398 APSGLDQSRIPFSERKLKFSNRFLPVASPF--HSHLLVP-----ASDLINKDLVKNNVSF 450
Query: 166 EA-QMEFARYENET-EILRE 183
A ++ Y+ LR
Sbjct: 451 NAKDIQIPVYDTFDGSDLRV 470
Score = 31.2 bits (70), Expect = 0.51
Identities = 20/93 (21%), Positives = 39/93 (41%), Gaps = 13/93 (13%)
Query: 65 LSERTVSKKS-SDYFKQRSIGP-RFATI----GSFEFEYGTRWKQLYELYKQKEEALQKE 118
+++R KKS S F+ G + I G+ + +Y +++L +LY+ +
Sbjct: 132 MAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTD-DY---FEELRDLYQTYHVLVGDL 187
Query: 119 LKLEEEKLEAQMEFARYENETEILRERECRFVE 151
+K E L E R + E + + +E
Sbjct: 188 IKFSAETLS---ELIRTTLDAEKVFTQGLNILE 217
Score = 28.5 bits (63), Expect = 3.6
Identities = 16/71 (22%), Positives = 28/71 (39%), Gaps = 12/71 (16%)
Query: 1 MNIERAVVLVDDRGNSKNEGI--IEFTRKPAAAQALKRCQDGVFFLTQSLKPVIVEPLDL 58
M+IE V +V RG + + E R A+ + F ++L+ V+
Sbjct: 1777 MSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVV------ 1830
Query: 59 VDDEEGLSERT 69
E + +RT
Sbjct: 1831 ----ERVGKRT 1837
>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex,
cytoplasm, ribonucleoprotein, structural protein; 3.50A
{Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A
Length = 861
Score = 41.3 bits (96), Expect = 2e-04
Identities = 20/139 (14%), Positives = 45/139 (32%)
Query: 103 QLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLEE 162
QL + + + + + EA+ R + + E+ + + E + +E
Sbjct: 659 QLAIEITTNSQEAAAKHEAQRLEQEARGRLERQKILDQSEAEKARKELLELEAMSMAVES 718
Query: 163 EKLEAQMEFARYENETEILREQLRQREADRERQKQEWELKERHAEEQRRCDEEAMRRQTE 222
+R E + Q + + E E + ++ R + R Q E
Sbjct: 719 TGNAKAEAESRAEAARIEGEGSVLQAKLKAQALAIETEAELERVKKVREMELIYARAQLE 778
Query: 223 EIHLRMQQQDEELRRRHQE 241
+ QQ ++ +E
Sbjct: 779 LEVSKAQQLANVEAKKFKE 797
Score = 38.6 bits (89), Expect = 0.002
Identities = 26/137 (18%), Positives = 58/137 (42%), Gaps = 6/137 (4%)
Query: 109 KQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLEEEKLEAQ 168
++ +ALQ+ ++L E E A ++E + L E+E R E + + E EK +
Sbjct: 648 QRTRDALQRSVQLAIEITTNSQE-AAAKHEAQRL-EQEARGRLERQKILDQSEAEKARKE 705
Query: 169 MEFARYENETEILREQLRQREADRERQKQEWELKERHAEEQRRCDEEAMRRQTE-EIHLR 227
+ + E +A+ E + + ++ + Q + +A+ +TE E+
Sbjct: 706 LLELEAMSMAV---ESTGNAKAEAESRAEAARIEGEGSVLQAKLKAQALAIETEAELERV 762
Query: 228 MQQQDEELRRRHQENSI 244
+ ++ EL + +
Sbjct: 763 KKVREMELIYARAQLEL 779
>2qag_C Septin-7; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 418
Score = 40.2 bits (93), Expect = 5e-04
Identities = 25/145 (17%), Positives = 61/145 (42%), Gaps = 13/145 (8%)
Query: 103 QLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLEE 162
YE Y+ + KL +N+ ++ + + EE + K+++
Sbjct: 285 VHYENYRSR--------KLAAVTYNGV---DNNKNKGQLTKSPLAQMEEERREHVAKMKK 333
Query: 163 EKLEAQMEF-ARYENETEILREQLRQREADRERQKQEWELKERHAEEQRR-CDEEAMRRQ 220
++E + F + + + + L++ + + E+ K+ E + + EE+RR ++E +
Sbjct: 334 MEMEMEQVFEMKVKEKVQKLKDSEAELQRRHEQMKKNLEAQHKELEEKRRQFEDEKANWE 393
Query: 221 TEEIHLRMQQQDEELRRRHQENSIF 245
++ L Q L + ++ IF
Sbjct: 394 AQQRILEQQNSSRTLEKNKKKGKIF 418
Score = 34.0 bits (77), Expect = 0.050
Identities = 22/117 (18%), Positives = 46/117 (39%), Gaps = 6/117 (5%)
Query: 98 GTRWKQLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKE 157
+ + + + ++EEE+ E + + E E E F + +K
Sbjct: 297 AVTYNGVDNNKNKGQLTKSPLAQMEEERREHVAKMKKMEMEMEQ------VFEMKVKEKV 350
Query: 158 LKLEEEKLEAQMEFARYENETEILREQLRQREADRERQKQEWELKERHAEEQRRCDE 214
KL++ + E Q + + E ++L ++ E +K WE ++R E+Q
Sbjct: 351 QKLKDSEAELQRRHEQMKKNLEAQHKELEEKRRQFEDEKANWEAQQRILEQQNSSRT 407
Score = 29.4 bits (65), Expect = 1.2
Identities = 23/125 (18%), Positives = 50/125 (40%), Gaps = 6/125 (4%)
Query: 78 FKQRSIGPRFATIGSFEFEYGTRWKQLYELYKQKEEALQKELKLEEEKLEAQMEFARYEN 137
++ R + G K +++ ++K E ++E E E
Sbjct: 290 YRSRKLAAVTYNGVDNNKNKGQLTKSPLAQMEEERREHVAKMKKMEMEMEQVFEMKVKEK 349
Query: 138 ETEI-LRERECRFVEEALQKELKLEEEKLEAQM-----EFARYENETEILREQLRQREAD 191
++ E E + E ++K L+ + ++LE + E A +E + IL +Q R +
Sbjct: 350 VQKLKDSEAELQRRHEQMKKNLEAQHKELEEKRRQFEDEKANWEAQQRILEQQNSSRTLE 409
Query: 192 RERQK 196
+ ++K
Sbjct: 410 KNKKK 414
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 37.1 bits (85), Expect = 0.003
Identities = 17/80 (21%), Positives = 35/80 (43%), Gaps = 12/80 (15%)
Query: 173 RYENETEILRE-------QLRQREADRERQKQEWELK-ERHAEEQRRCDEEAMRRQTEEI 224
R E E +R+ +L++ +A + +QEW K ++ EE + E Q E+
Sbjct: 79 RLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSE----QVEKN 134
Query: 225 HLRMQQQDEELRRRHQENSI 244
+ + D+ ++ + I
Sbjct: 135 KINNRIADKAFYQQPDADII 154
Score = 33.6 bits (76), Expect = 0.042
Identities = 17/91 (18%), Positives = 34/91 (37%), Gaps = 19/91 (20%)
Query: 134 RYENETEILRE-RECRFVEEALQKELKLEEEKLEAQMEFARYENETEILREQLRQREADR 192
R E E +R+ RE + + LQ+ + + E A+ + E E +++
Sbjct: 79 RLTQEPESIRKWREEQ--RKRLQELDAASKVMEQEWREKAKKDLE-----EWNQRQSEQV 131
Query: 193 ERQKQEWELKERHAEEQRRCDEEAMRRQTEE 223
E+ K R ++A +Q +
Sbjct: 132 EKNK-----------INNRIADKAFYQQPDA 151
Score = 31.3 bits (70), Expect = 0.22
Identities = 13/64 (20%), Positives = 27/64 (42%), Gaps = 11/64 (17%)
Query: 189 EADRERQ----------KQEWELKERHAEEQRRCDEEAMRRQTEEIHLRMQQQDEELRRR 238
+ADR Q +Q L+E A + ++E + +++ Q+Q E++ +
Sbjct: 76 QADRLTQEPESIRKWREEQRKRLQELDAASKVM-EQEWREKAKKDLEEWNQRQSEQVEKN 134
Query: 239 HQEN 242
N
Sbjct: 135 KINN 138
Score = 28.2 bits (62), Expect = 2.1
Identities = 9/58 (15%), Positives = 24/58 (41%)
Query: 100 RWKQLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKE 157
R +Q L + + E + E+ + E+ + ++E + R ++A ++
Sbjct: 91 REEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQ 148
>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP
hydrolysis, GDP, GMP, dynamin related, large GTPase
family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens}
SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A*
2bc9_A* 2d4h_A*
Length = 592
Score = 37.2 bits (85), Expect = 0.005
Identities = 32/131 (24%), Positives = 57/131 (43%), Gaps = 2/131 (1%)
Query: 110 QKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLEEEKLEAQM 169
Q EE LQ LK +E +A ++ + E E E E E A L E + + +
Sbjct: 456 QAEEILQTYLKSKESMTDAILQTDQTLTEKEKEIEVERVKAESAQASAKMLHEMQRKNEQ 515
Query: 170 EFARYENETEILREQLR-QREADRERQKQEWE-LKERHAEEQRRCDEEAMRRQTEEIHLR 227
+ E + +QL + E DR + +E E +EQ + +E ++++ +
Sbjct: 516 MMEQKERSYQEHLKQLTEKMENDRVQLLKEQERTLALKLQEQEQLLKEGFQKESRIMKNE 575
Query: 228 MQQQDEELRRR 238
+Q ++RRR
Sbjct: 576 IQDLQTKMRRR 586
>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA
recognition motif, vincu alpha-actinin, nucleus, RNA
binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E
Length = 284
Score = 36.5 bits (85), Expect = 0.006
Identities = 5/36 (13%), Positives = 13/36 (36%)
Query: 2 NIERAVVLVDDRGNSKNEGIIEFTRKPAAAQALKRC 37
+ + G K ++E+ A +A ++
Sbjct: 211 SPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQA 246
Score = 34.6 bits (80), Expect = 0.026
Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 2 NIERAVVLVDDR-GNSKNEGIIEFTRKPAAAQALKRC 37
++ER ++ +R G SK G E+ +K +AA+A
Sbjct: 121 SLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL 157
>2ycu_A Non muscle myosin 2C, alpha-actinin; motor protein; HET: AOV; 2.25A
{Homo sapiens} PDB: 1br1_A* 1br4_A* 1br2_A*
Length = 995
Score = 36.9 bits (86), Expect = 0.007
Identities = 14/125 (11%), Positives = 36/125 (28%), Gaps = 5/125 (4%)
Query: 117 KELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLEEEKLEAQMEFARYEN 176
++ +E E + + + + +++ E+ LE +
Sbjct: 807 EKPPKGQEVSELEAIYNSLQTKLRLIKREPFVAPAGLTPNEIDSTWSALEKAEQEHAEAL 866
Query: 177 ETEILREQLRQREADRERQKQEWELKERHAEEQRRCDEEAMRRQTEEIHLRMQQQDEELR 236
E RQ++ QK + ++ +T + +Q + + L
Sbjct: 867 R----IELKRQKKIAVLLQK-YNRILKKLENWATTKSVYLGSNETGDSITAVQAKLKNLE 921
Query: 237 RRHQE 241
E
Sbjct: 922 AFDGE 926
>1g8x_A Myosin II heavy chain fused to alpha-actinin 3; motor, lever ARM,
protein engineering, structural protein; HET: ADP; 2.80A
{Dictyostelium discoideum} SCOP: k.1.1.1
Length = 1010
Score = 36.2 bits (84), Expect = 0.012
Identities = 15/120 (12%), Positives = 34/120 (28%), Gaps = 15/120 (12%)
Query: 100 RWKQLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELK 159
R + E + + + + Q + E + E + + L +
Sbjct: 893 RILKKLENWATTKSVYLGSNETGDSITAVQAKLKNLEAFDGECQSLEGQSNSDLLSILAQ 952
Query: 160 LEEEKLEA------------QMEFARYENETEILREQLRQREADRERQKQEWELKERHAE 207
L E ++ ++ E + L A+ ER ++ +L H
Sbjct: 953 LTELNYNGVPELTERKDTFFAQQWTGVKSSAETYKNTL---LAELERLQKIEDLHHHHHH 1009
>1sjj_A Actinin; 3-helix bundle, calponin homology domain, calmodulin-like
domain, actin binding protein, contractIle protein;
20.00A {Gallus gallus} SCOP: i.15.1.1
Length = 863
Score = 35.6 bits (81), Expect = 0.018
Identities = 22/176 (12%), Positives = 60/176 (34%), Gaps = 12/176 (6%)
Query: 96 EYGTRWKQLYELYKQKEEALQKELKLEEEKLEAQMEFARY--------ENETEILREREC 147
+ +W L L +++ EAL++ KL E + +E+A+ E E L++
Sbjct: 454 KICDQWDNLGALTQKRREALERTEKLLETIDQLYLEYAKRAAPFNNWMEGAMEDLQDTFI 513
Query: 148 R----FVEEALQKELKLEEEKLEAQMEFARYENETEILREQLRQREADRERQKQEWELKE 203
++ + + +A E + + ++ + +
Sbjct: 514 VHTIEEIQGLTTAHEQFKATLPDADKERQAILGIHNEVSKIVQTYHVNMAGTNPYTTITP 573
Query: 204 RHAEEQRRCDEEAMRRQTEEIHLRMQQQDEELRRRHQENSIFMQVIVWLGDLKQGV 259
+ + + + R+ + + +Q + R R Q + + W+ + +
Sbjct: 574 QEINGKWEHVRQLVPRRDQALMEEHARQQQNERLRKQFGAQANVIGPWIQTKMEEI 629
Score = 30.6 bits (68), Expect = 0.57
Identities = 17/147 (11%), Positives = 54/147 (36%), Gaps = 3/147 (2%)
Query: 96 EYGTRWKQLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQ 155
E +W+ + +L ++++AL +E +++ + +F N + + +
Sbjct: 575 EINGKWEHVRQLVPRRDQALMEEHARQQQNERLRKQFGAQANVIGPWIQTKMEEIGRISI 634
Query: 156 KELKLEEEKLEAQMEFARYENETEILREQLRQREADRERQKQEWELKERHAEEQRRCDEE 215
+ E++L ++ E + ++ Q E D ++ ++ +H
Sbjct: 635 EMHGTLEDQLNHLRQY---EKSIVNYKPKIDQLEGDHQQIQEALIFDNKHTNYTMEHIRV 691
Query: 216 AMRRQTEEIHLRMQQQDEELRRRHQEN 242
+ I + + + ++ R +
Sbjct: 692 GWEQLLTTIARTINEVENQILTRDAKG 718
>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA
recognition motif, RRM, RNA binding domain, RBD,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 114
Score = 31.1 bits (71), Expect = 0.11
Identities = 11/35 (31%), Positives = 17/35 (48%)
Query: 2 NIERAVVLVDDRGNSKNEGIIEFTRKPAAAQALKR 36
+ RA +L D G S+ G + F + A QA+
Sbjct: 41 VVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISM 75
>1quu_A Human skeletal muscle alpha-actinin 2; triple-helix coiled coil,
contractIle protein; 2.50A {Homo sapiens} SCOP: a.7.1.1
a.7.1.1
Length = 250
Score = 32.3 bits (73), Expect = 0.11
Identities = 23/148 (15%), Positives = 60/148 (40%), Gaps = 4/148 (2%)
Query: 99 TRWKQLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEI-LRERECRFVEEALQKE 157
+W +L L +++ EAL++ KL E + +EFA+ + + +
Sbjct: 101 DQWDRLGTLTQKRREALERMEKLLETIDQLHLEFAKRAAPFNNWMEGAMEDLQDMFIVHS 160
Query: 158 LKLEEEKLEAQMEFARYENETEILREQLRQREADRERQKQEWELKERHAEEQRRCDEEAM 217
++ + + A +F E + R+ + + + E+ Q + ++ + + +
Sbjct: 161 IEEIQSLITAHEQFKATLPEADGERQSIMAIQNEVEKVIQSYNIRISSSNPYSTVTMDEL 220
Query: 218 RRQTEEIHLRMQQQD---EELRRRHQEN 242
R + +++ + +D +E R N
Sbjct: 221 RTKWDKVKQLVPIRDQSLQEELARQHAN 248
>3l4j_A DNA topoisomerase 2; topoisomerase, protein-DNA complex, covalently
linked comple supercoiling; HET: DNA PTR TSP; 2.48A
{Saccharomyces cerevisiae} PDB: 3l4k_A* 1bjt_A 1bgw_A
2rgr_A*
Length = 757
Score = 32.3 bits (73), Expect = 0.21
Identities = 26/160 (16%), Positives = 57/160 (35%), Gaps = 7/160 (4%)
Query: 105 YELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLEEEK 164
E Y+++++ + + L+ E EK Q++F + E E+ + R + L
Sbjct: 582 LEYYQKRKDHMSERLQWEVEKYSFQVKFIKMIIEKELTVTNKPRNAIIQELENLGFPRFN 641
Query: 165 LEAQMEFARYENETEILREQLRQREADRERQKQEWELKERHAEEQRRCDEE-------AM 217
E + + +E ++ +D E ++ E E +
Sbjct: 642 KEGKPYYGSPNDEIAEQINDVKGATSDEEDEESSHEDTENVINGPEELYGTYEYLLGMRI 701
Query: 218 RRQTEEIHLRMQQQDEELRRRHQENSIFMQVIVWLGDLKQ 257
T+E + ++ +Q +E + +W DLK
Sbjct: 702 WSLTKERYQKLLKQKQEKETELENLLKLSAKDIWNTDLKA 741
>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 = 30.7 bits (68), Expect = 0.29
Identities = 10/29 (34%), Positives = 14/29 (48%), Gaps = 6/29 (20%)
Query: 109 KQKEEALQKELKLEEEK------LEAQME 131
KQ + LQ LKL + ++A ME
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIKATME 47
Score = 28.4 bits (62), Expect = 2.0
Identities = 6/24 (25%), Positives = 14/24 (58%), Gaps = 6/24 (25%)
Query: 155 QKELKLEEEKLEAQMEFARYENET 178
++ LK KL+A ++ Y +++
Sbjct: 19 KQALK----KLQASLKL--YADDS 36
>1m1j_C Fibrinogen gamma chain; coiled coils, disulfide rings, fibrinogen,
blood clotting; HET: NDG NAG; 2.70A {Gallus gallus}
SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_C
Length = 409
Score = 31.4 bits (71), Expect = 0.33
Identities = 12/88 (13%), Positives = 26/88 (29%), Gaps = 4/88 (4%)
Query: 157 ELKLEEEKLEAQMEFARYENETEILREQLRQREADRERQKQEWELKERHAEEQRRCDEEA 216
+ K + E E + +Q E Q +K + E++ +
Sbjct: 24 GIADFFNKYRLTTDGELLEIEGLL--QQATNSTGSIEYLIQ--HIKTIYPSEKQTLPQSI 79
Query: 217 MRRQTEEIHLRMQQQDEELRRRHQENSI 244
+ + + + E EN+I
Sbjct: 80 EQLTQKSKKIIEEIIRYENTILAHENTI 107
Score = 31.0 bits (70), Expect = 0.37
Identities = 16/158 (10%), Positives = 46/158 (29%), Gaps = 13/158 (8%)
Query: 118 ELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLEEEKLEAQMEFARYENE 177
+ K + E E + + E L + +K + +
Sbjct: 24 GIADFFNKYRLTTDGELLEIEGLLQQATNSTGSIEYLIQHIKTIYPSEKQTL-----PQS 78
Query: 178 TEILREQLRQREADRERQKQEWELKERHAEEQRRCDEEAMRRQTEEIHLRMQQQDEELRR 237
E L ++ ++ + R + E ++ + ++ ++ Q + +
Sbjct: 79 IEQLTQKSKKIIEEIIRYENTILAHENTIQQLTD-MHIMNSNKITQLKQKIAQLESHCQE 137
Query: 238 RHQENSIFMQV-------IVWLGDLKQGVYQLGLTEGP 268
++ + + I G K G+Y + +
Sbjct: 138 PCKDTAEIQETTGRDCQDIANKGARKSGLYFIKPQKAK 175
>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural
genomi center for structural genomics, JCSG, protein
structure INI PSI-biology; 2.54A {Homo sapiens} PDB:
1no8_A
Length = 107
Score = 29.6 bits (67), Expect = 0.38
Identities = 11/35 (31%), Positives = 18/35 (51%)
Query: 2 NIERAVVLVDDRGNSKNEGIIEFTRKPAAAQALKR 36
+++A V D G S + F RK A +A+K+
Sbjct: 55 TLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQ 89
>3tho_B Exonuclease, putative; adenosine triphosphate, bacterial proteins,
DNA breaks, DOUB stranded, DNA repair, DNA repair
enzymes; HET: ADP; 2.61A {Thermotoga maritima} PDB:
3qg5_C
Length = 379
Score = 30.9 bits (70), Expect = 0.45
Identities = 18/101 (17%), Positives = 36/101 (35%), Gaps = 6/101 (5%)
Query: 102 KQLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLE 161
K + + + ++ + + L M +N +I R+ E + + +
Sbjct: 280 KSIRDSCRNFPGYVRVVYEEDSGILPDLMG--EIDNLVKIERKSRREIEEVLRESPEEFK 337
Query: 162 EEKLEAQME--FARYENETEILREQLRQ--READRERQKQE 198
EE + F Y + E E+L + E E +K E
Sbjct: 338 EELDKLDYFELFKEYLKKREENHEKLLKILDELLDEVKKSE 378
>3iyk_A VP5; icosahedral virus; HET: MNA; 7.00A {Bluetongue virus}
Length = 526
Score = 30.7 bits (69), Expect = 0.50
Identities = 26/130 (20%), Positives = 51/130 (39%), Gaps = 10/130 (7%)
Query: 112 EEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLEEEKLEAQMEF 171
E +Q +LK E++ ++ +Y ++ + +E V + E E E E Q +
Sbjct: 92 ERGIQAKLKELEDEQRNELVRLKYNDKIKEKFGKELEEVYNFMNGEANAEIED-EKQFDI 150
Query: 172 ARY--ENETEILREQLRQREADRERQKQEWELKERHAEEQRRCDE-----EAMRRQTEEI 224
+ +IL E+ + R + E+ ER E E +A++ E
Sbjct: 151 LNKAVTSYNKILTEE--DLQMRRLATALQKEIGERTHAETVMVKEYRDKIDALKNAIEVE 208
Query: 225 HLRMQQQDEE 234
MQ++ +
Sbjct: 209 RDGMQEEAIQ 218
>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain.,
transport protein; NMR {Mus musculus}
Length = 177
Score = 30.2 bits (68), Expect = 0.51
Identities = 10/35 (28%), Positives = 18/35 (51%)
Query: 2 NIERAVVLVDDRGNSKNEGIIEFTRKPAAAQALKR 36
+++A V D G S + F R+ A +A+K+
Sbjct: 114 TLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQ 148
>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; 2.00A {Homo
sapiens} PDB: 2ek6_A
Length = 95
Score = 28.8 bits (65), Expect = 0.51
Identities = 9/38 (23%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 3 IERAVVLV-DDRGNSKNEGIIEFTRKPAAAQALKRCQD 39
I +V L +++G E ++ F + A A+ D
Sbjct: 42 IPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLND 79
>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 114
Score = 29.3 bits (66), Expect = 0.53
Identities = 7/36 (19%), Positives = 17/36 (47%), Gaps = 1/36 (2%)
Query: 3 IERAVVLVDDR-GNSKNEGIIEFTRKPAAAQALKRC 37
E AV ++ D G + +++F + A ++ +
Sbjct: 42 DENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLH 77
>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 427
Score = 30.5 bits (68), Expect = 0.55
Identities = 23/136 (16%), Positives = 52/136 (38%), Gaps = 20/136 (14%)
Query: 103 QLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLEE 162
+ YELY++ KLEE + ++ + E + EL+ +E
Sbjct: 293 RHYELYRRC--------KLEEMGFKDTDPDSKPFSLQETYEAKR-----NEFLGELQKKE 339
Query: 163 EKLEAQMEFARYENETEI------LREQLRQREADRERQKQEWELKERHAEEQRRCDEEA 216
E++ E E E+ L E+ + + + +K++ E K++ +++ +
Sbjct: 340 EEMRQMFVQRVKEKEAELKEAEKELHEKFDRLKKLHQDEKKKLEDKKKSLDDEVN-AFKQ 398
Query: 217 MRRQTEEIHLRMQQQD 232
+ E + + Q
Sbjct: 399 RKTAAELLQSQGSQAG 414
>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 109
Score = 28.9 bits (65), Expect = 0.72
Identities = 9/35 (25%), Positives = 17/35 (48%)
Query: 2 NIERAVVLVDDRGNSKNEGIIEFTRKPAAAQALKR 36
++ +L D G + G+++F +ALKR
Sbjct: 41 RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEALKR 75
>2bfd_A 2-oxoisovalerate dehydrogenase alpha subunit; oxidoreductase,
multi-enzyme complex, acylation, oxidative
decarboxylation, maple syrup urine disease; HET: TDP;
1.39A {Homo sapiens} SCOP: c.36.1.11 PDB: 1v16_A*
2bfc_A* 1v1r_A* 1olu_A* 2bfb_A* 1v1m_A* 2bew_A* 1dtw_A*
1olx_A* 1ols_A* 1wci_A* 1x80_A* 2beu_A* 1u5b_A* 2bev_A*
1v11_A* 1x7x_A* 1x7y_A* 1x7w_A* 1x7z_A* ...
Length = 400
Score = 30.0 bits (68), Expect = 0.77
Identities = 11/68 (16%), Positives = 24/68 (35%), Gaps = 1/68 (1%)
Query: 136 ENETEILRERECRFVEEALQKELKLEEEKLEAQMEFARYENETEILREQLRQREADRERQ 195
E + + R++ R V EA ++ + + Y+ LR+Q +
Sbjct: 331 EEQEKAWRKQSRRKVMEAFEQAERKPKPNPNLLFSDV-YQEMPAQLRKQQESLARHLQTY 389
Query: 196 KQEWELKE 203
+ + L
Sbjct: 390 GEHYPLDH 397
>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA
binding protein-RNA complex; 1.85A {Homo sapiens} PDB:
3nna_A 3nnc_A 2dhs_A 3nnh_A
Length = 175
Score = 29.5 bits (67), Expect = 0.78
Identities = 12/52 (23%), Positives = 20/52 (38%), Gaps = 1/52 (1%)
Query: 2 NIERAVVLVDDRGNSKNEGIIEFTRKPAAAQALKRCQDGVFFLTQSLKPVIV 53
IE +L G S+ + FT + A A+K + P++V
Sbjct: 121 QIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAM-HQAQTMEGCSSPMVV 171
>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA
processing, mRNA splicing, transport, nucleus,
RNA-binding, spliceosome, transport; NMR {Mus musculus}
Length = 124
Score = 28.9 bits (65), Expect = 0.91
Identities = 10/35 (28%), Positives = 18/35 (51%)
Query: 2 NIERAVVLVDDRGNSKNEGIIEFTRKPAAAQALKR 36
+++A V D G S + F R+ A +A+K+
Sbjct: 61 TLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQ 95
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 30.3 bits (68), Expect = 0.96
Identities = 12/95 (12%), Positives = 36/95 (37%), Gaps = 8/95 (8%)
Query: 121 LEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLEEEKLEAQMEFARYENETEI 180
+ E++ + + E + LR+ + LQ L + +L+ + E +
Sbjct: 1908 INEKRDQLEEEQLHLNIGLKKLRD--TEAQVKDLQVSLAQKNRELDVKNE------QANQ 1959
Query: 181 LREQLRQREADRERQKQEWELKERHAEEQRRCDEE 215
+Q+ Q + E ++++ + + + +
Sbjct: 1960 KLKQMVQDQQAAEIKQKDARELQVQLDVRNKEIAV 1994
>2veq_A Centromere DNA-binding protein complex CBF3 subunit B;
transcription factor, cell cycle, zinc, CEP3P, nucleus,
phosphorylation; 2.49A {Saccharomyces cerevisiae} PDB:
2quq_A
Length = 565
Score = 29.8 bits (66), Expect = 1.1
Identities = 19/77 (24%), Positives = 32/77 (41%), Gaps = 6/77 (7%)
Query: 43 FLTQSLKPVIVEPLDLVDDEEGLSERTVSKKSSDYFKQRSIGPRFATIGSFEFEYGTRWK 102
+L +S KP + + LD + E + + V D RS RF + WK
Sbjct: 315 YLNKSSKPPL-KTLDAIRRELDIFQYKVDSLEED---FRSNNSRFQKFIALFQISTVSWK 370
Query: 103 --QLYELYKQKEEALQK 117
++Y +Y ++L K
Sbjct: 371 LFKMYLIYYDTADSLLK 387
>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} PDB:
2dh9_A
Length = 92
Score = 27.9 bits (63), Expect = 1.1
Identities = 8/35 (22%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 2 NIERAVVLVDDRGNSKNEGIIEFTRKPAAAQALKR 36
++ A + +++ G SK G+++F A +A +
Sbjct: 34 HVLYADIKMEN-GKSKGCGVVKFESPEVAERACRM 67
>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure
genomics, RRM domain, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: d.58.7.1
Length = 114
Score = 28.4 bits (64), Expect = 1.2
Identities = 11/56 (19%), Positives = 16/56 (28%), Gaps = 1/56 (1%)
Query: 2 NIERAVVLVDDRGNSKNEGIIEFTRKPAAAQALKRCQDGVFFLTQSLKPVIVEPLD 57
+ +L D G S+ G + +G F T EPL
Sbjct: 51 QVISTRILRDSSGTSRGVGFARMESTEKCEAVIGH-FNGKFIKTPPGVSAPTEPLL 105
>3hzj_A Rabgap1L, RAB GTPase-activating protein 1-like; structural genomics
consortium, SGC, alternative splicing, GTPase
activation, phosphoprotein; 2.30A {Homo sapiens}
Length = 310
Score = 29.3 bits (66), Expect = 1.3
Identities = 23/86 (26%), Positives = 38/86 (44%), Gaps = 14/86 (16%)
Query: 119 LKLEEEKL-----EAQMEFARYENETEILREREC-RFVEEALQKELKLEEEKLEAQMEFA 172
LK +E L E ++F R + E R +E+A +K+ +KL+
Sbjct: 231 LKTSKEDLLQADFEGALKFFRVQLPKRYRAEENARRLMEQACN--IKVPTKKLK------ 282
Query: 173 RYENETEILREQLRQREADRERQKQE 198
+YE E + +RE Q+E +R K
Sbjct: 283 KYEKEYQTMRESQLQQEDPMDRYKFV 308
>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding
domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus
musculus} SCOP: d.58.7.1
Length = 98
Score = 27.6 bits (62), Expect = 1.3
Identities = 9/38 (23%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 3 IERAVVLV-DDRGNSKNEGIIEFTRKPAAAQALKRCQD 39
I +V L +++G E ++ F + A A+ D
Sbjct: 42 IPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLND 79
>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 91
Score = 27.7 bits (62), Expect = 1.6
Identities = 7/35 (20%), Positives = 14/35 (40%)
Query: 2 NIERAVVLVDDRGNSKNEGIIEFTRKPAAAQALKR 36
++ + GN ++F+ + QALK
Sbjct: 35 KPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALKC 69
>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain,
RNA-protein complex, nucleolus, structural protein/RNA
complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1
d.58.7.1 PDB: 1rkj_A 2krr_A
Length = 175
Score = 28.3 bits (64), Expect = 1.8
Identities = 6/34 (17%), Positives = 13/34 (38%)
Query: 2 NIERAVVLVDDRGNSKNEGIIEFTRKPAAAQALK 35
V+ G ++ G ++F +AL+
Sbjct: 39 AKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE 72
>3p01_A Two-component response regulator; PSI-2, midwest center for
structural genomics, protein struc initiative, MCSG,
signali protein; 2.65A {Nostoc SP}
Length = 184
Score = 28.4 bits (64), Expect = 1.9
Identities = 9/34 (26%), Positives = 20/34 (58%)
Query: 215 EAMRRQTEEIHLRMQQQDEELRRRHQENSIFMQV 248
A+ ++ E + ++Q+ EELRR + + S+ +
Sbjct: 2 NAVVQRAAETYDLLKQRTEELRRANAQMSLLTVL 35
>3v2u_C Protein GAL3; rossmann fold, GHMP superfamily, transcription
regulation, transcription; HET: GLA ATP; 2.10A
{Saccharomyces cerevisiae} PDB: 3v5r_A 2aj4_A*
Length = 520
Score = 29.0 bits (64), Expect = 2.2
Identities = 20/128 (15%), Positives = 34/128 (26%), Gaps = 22/128 (17%)
Query: 142 LRERECRFVEEALQKELKLEEEKLEAQMEFARYENETEILREQLRQREADRERQKQEWEL 201
LR E AL + + ++ ER +
Sbjct: 268 LRVIEVTVAANALATRYSVALPSH---------------------KDNSNSERGNLRDFM 306
Query: 202 KERHAEEQRRCDEEAMRRQTE-EIHLRMQQQDEELRRRHQENSIFMQVIVWLGDLKQGVY 260
+A + + T E L+M Q EE R + + L ++
Sbjct: 307 DAYYARYENQAQPWNGDIGTGIERLLKMLQLVEESFSRKKSGFTVHEASTALNCSREEFT 366
Query: 261 QLGLTEGP 268
+ LT P
Sbjct: 367 RDYLTTFP 374
>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H';
structural genomics, RRM domain, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo
sapiens} SCOP: d.58.7.1
Length = 102
Score = 27.4 bits (61), Expect = 2.5
Identities = 8/35 (22%), Positives = 13/35 (37%)
Query: 2 NIERAVVLVDDRGNSKNEGIIEFTRKPAAAQALKR 36
N R + + G E +EF A A+ +
Sbjct: 40 NPMRVHIEIGPDGRVTGEADVEFATHEDAVAAMAK 74
>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A
{Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20
c.37.1.20
Length = 854
Score = 28.7 bits (65), Expect = 2.7
Identities = 21/109 (19%), Positives = 48/109 (44%), Gaps = 20/109 (18%)
Query: 109 KQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLEEEKLEAQ 168
+++ +A++ E+ E++ A++ A +E E EILR+ +E + +++ +
Sbjct: 429 QERLKAIEAEIAKLTEEI-AKLR-AEWEREREILRK----------LREAQHRLDEVRRE 476
Query: 169 MEFAR----YENETEI----LREQLRQREADRERQKQEWELKERHAEEQ 209
+E A E+ L + + EA E+ + ++ EE
Sbjct: 477 IELAERQYDLNRAAELRYGELPKLEAEVEALSEKLRGARFVRLEVTEED 525
>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; 1.54A {Homo sapiens}
Length = 95
Score = 26.8 bits (60), Expect = 2.7
Identities = 6/34 (17%), Positives = 14/34 (41%)
Query: 2 NIERAVVLVDDRGNSKNEGIIEFTRKPAAAQALK 35
+ + + D G K+ G + F + + A+
Sbjct: 42 PLTKVTICKDREGKPKSFGFVCFKHPESVSYAIA 75
>3kki_A CAI-1 autoinducer synthase; quorum sensing, CQSA, P virulence,
acyltransferase, aminotransferase, pyridoxal PHO
transferase; HET: PLP; 1.80A {Vibrio cholerae} PDB:
3hqt_A* 2wk9_A* 2wk8_A* 2wka_A* 2wk7_A
Length = 409
Score = 28.4 bits (64), Expect = 2.8
Identities = 9/40 (22%), Positives = 16/40 (40%), Gaps = 9/40 (22%)
Query: 226 LRMQQQDEELRRRHQENSIFMQVIVWLGDLKQGVYQLGLT 265
L + + + R+ + L+ G+ QLGLT
Sbjct: 300 LEIIESADNRRQHLDRMARK---------LRIGLSQLGLT 330
>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
PDB: 2dnk_A 2dno_A
Length = 105
Score = 26.9 bits (60), Expect = 3.0
Identities = 11/52 (21%), Positives = 21/52 (40%), Gaps = 1/52 (1%)
Query: 2 NIERAVVLVDDRGNSKNEGIIEFTRKPAAAQALKRCQDGVFFLTQSLKPVIV 53
I+ VL G+SK ++F+ A A+ G + + ++V
Sbjct: 41 VIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHAL-HGSQTMPGASSSLVV 91
>1zvu_A Topoisomerase IV subunit A; beta-pinwheel, ATPase, supercoiling,
decatenation, DNA bindi topology; 3.00A {Escherichia
coli}
Length = 716
Score = 28.3 bits (64), Expect = 3.3
Identities = 14/58 (24%), Positives = 25/58 (43%), Gaps = 3/58 (5%)
Query: 154 LQKELKLEEEKLEAQMEFARYENETEILREQLRQREADRERQKQE-WELKERHAEEQR 210
L+ KLEE K+ E + E E + L+ L K+E + + +++R
Sbjct: 396 LRHLAKLEEMKIRG--EQSELEKERDQLQGILASERKMNNLLKKELQADAQAYGDDRR 451
>2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase holoenzyme,
streptolydigin, antibiotic, transcription regulation;
HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.2
PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D* 2a6e_D 2a68_D*
2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D* 3aoh_D* 3aoi_D*
3dxj_D* 3eql_D* 1ynj_D* 1l9z_D 1l9u_D* 1ynn_D* 2auj_D
Length = 1524
Score = 28.2 bits (63), Expect = 3.3
Identities = 19/150 (12%), Positives = 36/150 (24%), Gaps = 3/150 (2%)
Query: 94 EFEYGTRWKQLYELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEA 153
+ EY E Y EE ++ + R R V
Sbjct: 155 DEEYRELRYGKQETYPLPPGVDALVKDGEEVVKGQELAPGVVSRLDGVALYRFPRRVRVE 214
Query: 154 LQKELKLEEEKLEAQMEFARYENETE--ILREQLRQREADRERQKQEWELKERHAEEQRR 211
K+ + L + + + E E + E A R
Sbjct: 215 YVKKERAGLR-LPLAAWVEKEAYKPGEILAELPEPYLFRAEEEGVVELKELEEGAFLVLR 273
Query: 212 CDEEAMRRQTEEIHLRMQQQDEELRRRHQE 241
++E + + + E+ + Q
Sbjct: 274 REDEPVATYFLPVGMTPLVVHGEIVEKGQP 303
>2xkj_E Topoisomerase IV; type IIA topoisomerase; 2.20A {Acinetobacter
baumannii} PDB: 2xkk_A*
Length = 767
Score = 28.1 bits (63), Expect = 3.8
Identities = 16/58 (27%), Positives = 27/58 (46%), Gaps = 3/58 (5%)
Query: 154 LQKELKLEEEKLEAQMEFARYENETEILREQLRQREADRERQKQE-WELKERHAEEQR 210
L+ KLEE ++ E + I+REQL E+ + E E ++ +E+R
Sbjct: 690 LRHLAKLEEMEIRH--EQDELSAKAAIIREQLENPESLKNLIISELKEDAKKFGDERR 745
>3kxe_C Antitoxin protein PARD-1; complex, TA system, protein binding;
2.60A {Caulobacter crescentus NA1000}
Length = 88
Score = 26.3 bits (58), Expect = 4.0
Identities = 10/65 (15%), Positives = 26/65 (40%), Gaps = 3/65 (4%)
Query: 162 EEKLEAQMEFARYENETEILREQLR---QREADRERQKQEWELKERHAEEQRRCDEEAMR 218
+ +++Q+ RY + +E++R LR + EA + E + + +
Sbjct: 15 QAFIDSQVADGRYGSASEVIRAGLRLLEENEAKLAALRAALIEGEESGFIEDFDFDAFIE 74
Query: 219 RQTEE 223
++
Sbjct: 75 ERSRA 79
>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 104
Score = 26.5 bits (59), Expect = 4.5
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 2 NIERAVVLVDDRGNSKNEGIIEFTRKPAAAQALKRCQDGVFFLTQSLKPVIV 53
+ V++D G SK G ++FT + +AL CQ G L KPV +
Sbjct: 36 SCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTECQ-GAVGL--GSKPVRL 84
>2ztg_A Alanyl-tRNA synthetase; class-II aminoacyl-tRNA synthetase,
aminoacyl-tRNA synthetase, ATP-binding, cytoplasm,
ligase; HET: A5A; 2.20A {Archaeoglobus fulgidus}
Length = 739
Score = 27.6 bits (62), Expect = 5.0
Identities = 7/24 (29%), Positives = 13/24 (54%)
Query: 102 KQLYELYKQKEEALQKELKLEEEK 125
K L + +Q+ L+LE+E+
Sbjct: 395 KILGFEFDVPLSTVQEILELEKER 418
>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens} SCOP: d.58.7.1
Length = 124
Score = 26.3 bits (58), Expect = 5.6
Identities = 9/35 (25%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 3 IERAVVLVDDR-GNSKNEGIIEFTRKPAAAQALKR 36
+E ++ + G + EG +EF + AL R
Sbjct: 52 VEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCR 86
>2imq_X Salivary nitrophorin; ferrous heme, beta-sandwich, transport
protein; HET: HEM; 1.30A {Cimex lectularius} SCOP:
d.151.1.2 PDB: 1ntf_A* 1y21_A* 1yjh_A* 1si6_X*
Length = 282
Score = 27.1 bits (60), Expect = 6.0
Identities = 5/33 (15%), Positives = 13/33 (39%)
Query: 223 EIHLRMQQQDEELRRRHQENSIFMQVIVWLGDL 255
++ + + R + + + W+GDL
Sbjct: 140 DVTSTNTKYAYDTRLDYSKKDDPSDFLFWIGDL 172
>2bwn_A 5-aminolevulinate synthase; tetrapyrrole biosynthesis, heme
biosynthesis, pyridoxal PHOS dependent, transferase,
acyltransferase; HET: LLP; 2.1A {Rhodobacter capsulatus}
SCOP: c.67.1.4 PDB: 2bwo_A* 2bwp_A*
Length = 401
Score = 27.2 bits (61), Expect = 6.1
Identities = 8/48 (16%), Positives = 15/48 (31%), Gaps = 9/48 (18%)
Query: 221 TEEIHLRMQQQDEELRRRHQENSIFMQVIVWLGDLKQGVYQLGLTEGP 268
I + ++LR Q ++ LK + LG+
Sbjct: 289 QASIAFLKTAEGQKLRDAQQMHAKV---------LKMRLKALGMPIID 327
>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 3.65A {Bacillus subtilis}
Length = 468
Score = 27.2 bits (61), Expect = 6.3
Identities = 12/57 (21%), Positives = 26/57 (45%), Gaps = 3/57 (5%)
Query: 156 KELKLEEEKLEAQMEFARYENETE---ILREQLRQREADRERQKQEWELKERHAEEQ 209
KEL+ + +++ + + A E E LR+ ++ E K+ W+ K+ +
Sbjct: 397 KELEQKLDEVRKEKDAAVQSQEFEKAASLRDTEQRLREQVEDTKKSWKEKQGQENSE 453
>2i1j_A Moesin; FERM, coiled-coil, C-ermad, ERM, radixin, ezrin, MER actin
binding, masking, regulation, SELF-inhibition, cell A
membrane protein; 2.10A {Spodoptera frugiperda} PDB:
2i1k_A 1e5w_A
Length = 575
Score = 27.6 bits (60), Expect = 6.4
Identities = 18/139 (12%), Positives = 43/139 (30%), Gaps = 1/139 (0%)
Query: 106 ELYKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLEEEKL 165
+L + ++ ++++E E R + E E R ++ L
Sbjct: 409 KLEDEIRAKQEEVSRIQQEVELKDSETRRLQEEVEDARRKQDEAAAALLAATTPQHHHVA 468
Query: 166 EAQMEFARYENETEILREQLRQREADRERQKQEWELK-ERHAEEQRRCDEEAMRRQTEEI 224
E ++N ++ E A + AE R + + +
Sbjct: 469 ERADTDPDHDNASDAGSESGGGDLARGPDDLVDPVADRRTLAERNERLHNQLKALKQDLA 528
Query: 225 HLRMQQQDEELRRRHQENS 243
+ ++ + + H+EN
Sbjct: 529 RSCDETKETAMDKIHRENV 547
>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA
binding domain, RNA recognition motif, SP factor, snRNP,
spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP:
d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A
Length = 292
Score = 27.3 bits (61), Expect = 6.5
Identities = 8/30 (26%), Positives = 12/30 (40%)
Query: 7 VVLVDDRGNSKNEGIIEFTRKPAAAQALKR 36
V + D + IEF R A A+ +
Sbjct: 71 VDVADSLKKNFRFARIEFARYDGALAAITK 100
>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 6.93A {Bacillus subtilis}
Length = 758
Score = 27.5 bits (62), Expect = 6.5
Identities = 12/57 (21%), Positives = 26/57 (45%), Gaps = 3/57 (5%)
Query: 156 KELKLEEEKLEAQMEFARYENETE---ILREQLRQREADRERQKQEWELKERHAEEQ 209
KEL+ + +++ + + A E E LR+ ++ E K+ W+ K+ +
Sbjct: 397 KELEQKLDEVRKEKDAAVQSQEFEKAASLRDTEQRLREQVEDTKKSWKEKQGQENSE 453
Score = 26.8 bits (60), Expect = 9.1
Identities = 12/53 (22%), Positives = 26/53 (49%), Gaps = 7/53 (13%)
Query: 101 WKQLYELYKQKEEALQK-------ELKLEEEKLEAQMEFARYENETEILRERE 146
++L E+ K+K+ A+Q L+ E++L Q+E + + + +E
Sbjct: 400 EQKLDEVRKEKDAAVQSQEFEKAASLRDTEQRLREQVEDTKKSWKEKQGQENS 452
>2a2c_A N-acetylgalactosamine kinase; galactokinase, , transferase; HET:
NG1 ADP; 1.65A {Homo sapiens} PDB: 2a2d_A*
Length = 478
Score = 27.2 bits (60), Expect = 6.8
Identities = 17/97 (17%), Positives = 28/97 (28%), Gaps = 7/97 (7%)
Query: 142 LRERECRFVEEALQKELKLEEEKLEAQMEFARYENETEILREQLRQREADRERQKQEWEL 201
+R ECR + L K L+ +K+ E L L + E
Sbjct: 262 IRVMECRLAAKLLAKYKSLQWDKVLRLEEVQ------AKLGISLEEMLLVTEDALHPEPY 315
Query: 202 KERHAEEQRRCDEEAMRRQTEEIHLRMQQQDEELRRR 238
E +R Q + + +L +R
Sbjct: 316 NPEEICRCLGISLEELRTQILSPNTQ-DVLIFKLYQR 351
>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
Length = 85
Score = 25.3 bits (56), Expect = 7.4
Identities = 8/47 (17%), Positives = 17/47 (36%), Gaps = 5/47 (10%)
Query: 3 IERAVVLVDDRGNSKNEGIIEFTRKPAAAQALKRCQDGVFFLTQSLK 49
I V+ + I+F + AA A ++ + + + L
Sbjct: 39 IRTITVVQR-----QQCAFIQFATRQAAEVAAEKSFNKLIVNGRRLN 80
>1f06_A MESO-diaminopimelate D-dehydrogenase; enzyme-NADPH-inhibitor
ternary complex, oxidoreductase; HET: NDP 2NP; 2.10A
{Corynebacterium glutamicum} SCOP: c.2.1.3 d.81.1.3 PDB:
1dap_A* 2dap_A* 3dap_A*
Length = 320
Score = 26.8 bits (59), Expect = 7.5
Identities = 17/81 (20%), Positives = 29/81 (35%), Gaps = 3/81 (3%)
Query: 112 EEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLEEEKLEAQMEF 171
++A+Q L E+ LE + + +R+C V +A E ++E + F
Sbjct: 163 QKAVQYTLPSEDA-LEKARRGEAGDLTGKQTHKRQCFVVADAADHE-RIENDIRTMPDYF 220
Query: 172 ARYENE-TEILREQLRQREAD 191
YE E I
Sbjct: 221 VGYEVEVNFIDEATFDSEHTG 241
>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 361
Score = 27.1 bits (59), Expect = 7.8
Identities = 16/85 (18%), Positives = 33/85 (38%), Gaps = 3/85 (3%)
Query: 153 ALQKELKLEEEKLEAQMEFARYENETEILREQLRQREADRERQKQEWELKERHAEEQRRC 212
L+ L + L+ + YEN E+L++ E + + E + R
Sbjct: 275 KLRTMLITHMQDLQEVTQDLHYENFR---SERLKRGGRKVENEDMNKDQILLEKEAELRR 331
Query: 213 DEEAMRRQTEEIHLRMQQQDEELRR 237
+E + R ++ ++MQ D +
Sbjct: 332 MQEMIARMQAQMQMQMQGGDGDGGA 356
>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens}
SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A
Length = 336
Score = 26.8 bits (59), Expect = 8.8
Identities = 18/91 (19%), Positives = 35/91 (38%), Gaps = 1/91 (1%)
Query: 108 YKQKEEALQKELKLEEEKLEAQMEFARYENETEILRERECRFVEEALQKELKLEEEKLEA 167
++ QK L+L A+ + A + RE + ++ L EE K +A
Sbjct: 246 FELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMFER-LAEEENKAKA 304
Query: 168 QMEFARYENETEILREQLRQREADRERQKQE 198
+ + +TE+ EQ + + + E
Sbjct: 305 EASSGDHPTDTEMKEEQKSNTAGSQSQVETE 335
>2w8t_A SPT, serine palmitoyltransferase; HET: LLP; 1.25A {Sphingomonas
paucimobilis} PDB: 2w8u_A* 2w8w_A* 2xbn_A* 2w8j_A*
2w8v_A* 2jg2_A* 2jgt_A 2x8u_A*
Length = 427
Score = 26.8 bits (60), Expect = 9.2
Identities = 9/43 (20%), Positives = 13/43 (30%), Gaps = 9/43 (20%)
Query: 226 LRMQQQDEELRRRHQENSIFMQVIVWLGDLKQGVYQLGLTEGP 268
+R E R R N+ L G+ +G G
Sbjct: 308 IRKLMTAHEKRERLWSNARA---------LHGGLKAMGFRLGT 341
>1ywm_A C protein alpha-antigen; beta sandwich, fibronectin fold,
antiparallel three-helix BU surface active protein;
1.86A {Streptococcus agalactiae} PDB: 2o0i_1
Length = 200
Score = 26.3 bits (57), Expect = 9.6
Identities = 10/45 (22%), Positives = 22/45 (48%), Gaps = 3/45 (6%)
Query: 53 VEPLDLVDDEEGLSERTVSKKSSDYFKQRSIGPRFATIGSFEFEY 97
++PL L+ E+G + + V ++ + Y+ S + + G Y
Sbjct: 53 IDPLQLIVLEQGFTAKYVFRQGTKYYGDVS---QLQSTGRASLTY 94
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.315 0.132 0.367
Gapped
Lambda K H
0.267 0.0364 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,377,473
Number of extensions: 276413
Number of successful extensions: 1809
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1480
Number of HSP's successfully gapped: 424
Length of query: 279
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 187
Effective length of database: 4,133,061
Effective search space: 772882407
Effective search space used: 772882407
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: 41 (21.6 bits)
S2: 57 (26.7 bits)