RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7536
(265 letters)
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 44.7 bits (106), Expect = 2e-05
Identities = 26/178 (14%), Positives = 64/178 (35%), Gaps = 14/178 (7%)
Query: 58 LKDAAQVLDKLKHEEAKFNVDSDKIDSLIKKSEEILESKKIESPSAAIESETETNKQVDN 117
LK A+ +++ K +KI L +K +E + K + N
Sbjct: 909 LKIEARSVERYKKLHIGL---ENKIMQLQRKIDEQNKEYK--------SLLEKMNNLEIT 957
Query: 118 QAETKKQLESEIETKKQLESEAE--TKKQVDSQGETKKQVDSQAESKKQVDAETKKQVDS 175
+ ++L S++E + E EA+ T + + Q E K +++ + +
Sbjct: 958 YSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKY 1017
Query: 176 QVETKKQFDSQAETKKQLDSQVETKKQNDSQAETKKQNDSQAETKKQNDS-QAEMEKQ 232
+ ET++ E L ++ E + + + + ++ + ++ +
Sbjct: 1018 KHETEQLVSELKEQNTLLKTEKEELNRRIHDQAKEITETMEKKLVEETKQLELDLNDE 1075
>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 = 44.4 bits (105), Expect = 2e-05
Identities = 28/199 (14%), Positives = 82/199 (41%), Gaps = 9/199 (4%)
Query: 58 LKDAAQVLDKLKHEEAKFNVDSDKIDSLIKKSEEILESKKIESPSAAIESET-ETNKQVD 116
L++ KL+ E+ + K++ I E+ ++ K+ +E + +
Sbjct: 964 LEEEEAARQKLQLEKVTADGKIKKMEDDILIMED--QNNKLTKERKLLEERVSDLTTNLA 1021
Query: 117 NQAETKKQLESEIETKKQLESEAETKKQVDSQGETKKQVDSQAESKKQVDAETKKQVDSQ 176
+ E K L + + SE E + + + +K + K++++ E+ +
Sbjct: 1022 EEEEKAKNLTKLKNKHESMISELEVRLK-----KEEKSRQELEKIKRKLEGESSDLHEQI 1076
Query: 177 VETKKQFDSQAETKKQLDSQVETKKQNDSQAETKKQNDSQAETKKQNDSQAEMEKQFDSQ 236
E + Q + + +++ + ET ++N++ + ++ +++++ +S+
Sbjct: 1077 AELQAQIAELKAQLAKKEEELQAALA-RLEDETSQKNNALKKIRELESHISDLQEDLESE 1135
Query: 237 AEAKKHLAQRYDDFMKELD 255
A+ ++ D +EL+
Sbjct: 1136 KAARNKAEKQKRDLSEELE 1154
>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 = 43.9 bits (103), Expect = 3e-05
Identities = 20/92 (21%), Positives = 33/92 (35%), Gaps = 22/92 (23%)
Query: 5 NYFPAASVLLKDAGSKSPSGSGSSLSHLKTSGIKKLLAA-------------LMKRYN-Y 50
NY A + A S S+L G +L+A L Y Y
Sbjct: 125 NYITARIM----AKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTY 180
Query: 51 FPAASVLLKDAAQVLDKLKHEEAKFNVDSDKI 82
L+K +A+ L +L + +D++K+
Sbjct: 181 HVLVGDLIKFSAETLSEL----IRTTLDAEKV 208
Score = 34.3 bits (78), Expect = 0.045
Identities = 21/116 (18%), Positives = 34/116 (29%), Gaps = 15/116 (12%)
Query: 1 MKRYNYFPAASVLLKDAGSKSPSGSGSSLSHLKTSGIKKLLAALMKRYNYFPAASVLLKD 60
M Y AA + A + G S+ + + L +F K
Sbjct: 1633 MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNL-------TIHFGGEK--GKR 1683
Query: 61 AAQVLDKLKHEEAKFNVD-SDKIDSLIKKSEEILESKKIESPSAAIESETETNKQV 115
+ + E VD K + + K+ E S S + S T+ Q
Sbjct: 1684 IRENYSAMIFET---IVDGKLKTEKIFKEINEHSTSYTFRSEKGLL-SATQ-FTQP 1734
Score = 28.9 bits (64), Expect = 2.6
Identities = 13/72 (18%), Positives = 28/72 (38%), Gaps = 15/72 (20%)
Query: 8 PAASVLLKDAGSKS----------P---SGSGSSLSHLKTSGIKKLLAALMKRYNYFPAA 54
PA+ ++ KD + P + GS L L S ++++ +++ +
Sbjct: 434 PASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETT 493
Query: 55 SVLLKDAAQVLD 66
+ A +LD
Sbjct: 494 TQF--KATHILD 503
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 42.1 bits (98), Expect = 1e-04
Identities = 40/288 (13%), Positives = 74/288 (25%), Gaps = 101/288 (35%)
Query: 32 LKTSGIKKLLAALMKRYNYFPAASVLLKDAAQVLDKLKHEEA--KFNV---------DSD 80
L+ I+ L L+K Y + LL VL +++ +A FN+
Sbjct: 225 LRIHSIQAELRRLLKSKPY---ENCLL-----VLLNVQNAKAWNAFNLSCKILLTTRFKQ 276
Query: 81 KIDSLI------------------KKSEEIL-------------ESKKIESP------SA 103
D L + + +L E +P +
Sbjct: 277 VTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT-NPRRLSIIAE 335
Query: 104 AIESETETNKQVDNQAETKKQLESEIETK-KQLESEAETKK----------------QV- 145
+I T + +L + IE+ LE AE +K +
Sbjct: 336 SIRDGLATWDNWKHV--NCDKLTTIIESSLNVLEP-AEYRKMFDRLSVFPPSAHIPTILL 392
Query: 146 -----DSQGETKKQVDSQAESKKQVDAETKKQV----DSQVETKKQFDSQAETKKQLDSQ 196
D V ++ V+ + K+ +E K + +++ + +
Sbjct: 393 SLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDH 452
Query: 197 VETKKQNDSQAETKKQND-----------SQAETKKQNDSQAEMEKQF 233
K DS D E + F
Sbjct: 453 YNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE---HPERMTLFRMVF 497
Score = 32.1 bits (72), Expect = 0.19
Identities = 39/246 (15%), Positives = 79/246 (32%), Gaps = 49/246 (19%)
Query: 47 RYNYFPAASVLLK------DAAQVLDKLKH----EEAKFNVDSDKIDSLIKKSEEILESK 96
+Y Y SV D V D K EE + S S + L SK
Sbjct: 15 QYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSK 74
Query: 97 KIESPSAAIESETETNKQVDNQAETKKQLESEIETKKQLESEAETKKQVDSQGETKKQVD 156
+ E +E N K L S I+T+++ + T+ ++ + + D
Sbjct: 75 QEEMVQKFVEEVLRIN---------YKFLMSPIKTEQR-QPSMMTRMYIEQR--DRLYND 122
Query: 157 SQAESKKQVDAETKKQVDSQVETKKQFDSQAET----------KKQLDSQV----ETKKQ 202
+Q +K V ++ Q ++ A+ K + V + + +
Sbjct: 123 NQVFAKYNV---SRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCK 179
Query: 203 NDSQA---ETKKQNDSQAETKKQNDSQAEMEKQFDSQAEAKKHLAQRYDD-------FMK 252
D + K N + + +++ + S+++ ++ R +K
Sbjct: 180 MDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLK 239
Query: 253 ELDYKE 258
Y+
Sbjct: 240 SKPYEN 245
Score = 27.5 bits (60), Expect = 5.5
Identities = 7/37 (18%), Positives = 14/37 (37%), Gaps = 1/37 (2%)
Query: 229 MEKQFDSQAEAKKHLAQRY-DDFMKELDYKETSGTPR 264
M+ + K + + D F+ D K+ P+
Sbjct: 7 MDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPK 43
>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 = 39.1 bits (91), Expect = 0.001
Identities = 26/226 (11%), Positives = 69/226 (30%), Gaps = 25/226 (11%)
Query: 31 HLKTSGIKKLLAALMKRYNYFPAASVLLKDAAQVLDKLKHEEAKFNVDSDKIDSLIKKSE 90
H L R NY L D + N D+++
Sbjct: 1872 HQTIGEANIRLLKRQGRQNYVTPRHYL--------DFINQVVLLINEKRDQLEEEQLHLN 1923
Query: 91 EILESKKIESPSAAIES-ETETNKQVDNQAETKKQLESEIETKKQLESEAETKKQVDSQG 149
L+ K+ A ++ + ++ +Q +++ Q + AE K++ +
Sbjct: 1924 IGLK--KLRDTEAQVKDLQVSLAQKNRELDVKNEQANQKLKQMVQDQQAAEIKQKDAREL 1981
Query: 150 ETKKQVDSQAESKKQVDAETKKQVDSQVETKKQFDSQAETKKQLDSQVETKKQNDSQAET 209
+ + V ++ + ++V A + ++ + + +
Sbjct: 1982 QVQLDVRNKEIAVQKVKAYADLEKAEPTGPLRE--EVEQLENAAN------------ELK 2027
Query: 210 KKQNDSQAETKKQNDSQAEMEKQFDSQAEAKKHLAQRYDDFMKELD 255
KQ++ A S A ++++ + + + ++D
Sbjct: 2028 LKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNKVD 2073
>3gdb_A Endo-D, putative uncharacterized protein SPR0440;
alpha-beta-barrels, cell WALL, peptidoglycan-anchor,
secreted, hydrolase; HET: PGE; 1.87A {Streptococcus
pneumoniae} PDB: 2xqx_A
Length = 937
Score = 37.6 bits (86), Expect = 0.004
Identities = 21/137 (15%), Positives = 51/137 (37%), Gaps = 1/137 (0%)
Query: 106 ESETETNKQVDNQAETKKQLESEIETKKQLESEAE-TKKQVDSQGETKKQVDSQAESKKQ 164
+ + Q E E+ + + E+E + + D Q E + +++ E +
Sbjct: 8 HGHHHQLENLYFQGEETAVPENSGANTELVSGESEHSTNEADKQNEGEHARENKLEKAEG 67
Query: 165 VDAETKKQVDSQVETKKQFDSQAETKKQLDSQVETKKQNDSQAETKKQNDSQAETKKQND 224
V ++ + E ++A + + + + AE K ++D + E K +
Sbjct: 68 VATASETASPASNEAATTETAEAASAAKPEEKASEVVAETPSAEAKPKSDKETEAKPEAT 127
Query: 225 SQAEMEKQFDSQAEAKK 241
+Q + K + +K
Sbjct: 128 NQGDESKPAAEANKTEK 144
>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 = 36.7 bits (84), Expect = 0.006
Identities = 32/182 (17%), Positives = 70/182 (38%), Gaps = 6/182 (3%)
Query: 69 KHEEAKFNVDSDKIDSLIKKSEEILESKKIESPSAAIESETETNKQVDNQAETKKQLESE 128
+ E D + ++ + EI + + + + + + + + Q E+E
Sbjct: 641 QSVEPVDQRTRDALQRSVQLAIEITTNSQEAAAKHEAQRLEQEARGRLERQKILDQSEAE 700
Query: 129 IETKKQLESEAETKKQVDSQGETKKQVDSQAESKKQVDAETKKQVDSQVETKKQFDSQAE 188
K+ LE EA V+S G K + +S+AE+ + + Q + + +++AE
Sbjct: 701 KARKELLELEAM-SMAVESTGNAKAEAESRAEAARIEGEGSVLQAKLKAQ-ALAIETEAE 758
Query: 189 ---TKKQLDSQVETKKQNDSQAETKKQNDSQAETKK-QNDSQAEMEKQFDSQAEAKKHLA 244
KK + ++ + +K Q + E KK + ++A A A +
Sbjct: 759 LERVKKVREMELIYARAQLELEVSKAQQLANVEAKKFKEMTEALGPGTIRDLAVAGPEMQ 818
Query: 245 QR 246
+
Sbjct: 819 VK 820
Score = 35.9 bits (82), Expect = 0.012
Identities = 23/188 (12%), Positives = 67/188 (35%), Gaps = 5/188 (2%)
Query: 59 KDAAQVLDKLKHEEAKFNVDSDKIDSLIKKSEEILESKKIESPSAAIESETETNKQVDNQ 118
A + + E + D + + + + S ++S +++ +
Sbjct: 594 NSARIIRMAVFGFEMSEDTGPDGTLLPKARDQAVFPQNGLVVSSVDVQSVEPVDQRTRDA 653
Query: 119 AETKKQLESEIETKKQLESEAETKKQVDSQGETKKQVDSQAESKKQVDAETKKQVDSQVE 178
+ QL EI T Q + ++++ E + +++ Q + + +K++
Sbjct: 654 LQRSVQLAIEITTNSQEAAAKHEAQRLEQ--EARGRLERQKILDQSEAEKARKELLELEA 711
Query: 179 TKKQFDSQAETKKQLDSQVETKKQNDSQAETKKQNDSQAETKKQNDSQAEMEKQFDSQAE 238
+S K + +S+ E + + + + +QA + +AE+E+ +
Sbjct: 712 MSMAVESTGNAKAEAESRAEAARIEGEGSVLQAKLKAQALAIET---EAELERVKKVREM 768
Query: 239 AKKHLAQR 246
+ +
Sbjct: 769 ELIYARAQ 776
Score = 33.2 bits (75), Expect = 0.098
Identities = 28/175 (16%), Positives = 62/175 (35%), Gaps = 4/175 (2%)
Query: 59 KDAAQVLDKLKHEEAKFNVDSDKIDSLIKKSEEILESKKIESPSAAIESETETNKQVDNQ 118
+DA Q +L E + ++ + +E + + E+E + ++ +
Sbjct: 651 RDALQRSVQLAIEITTNSQEAAAKHEAQRLEQEARGRLERQKILDQSEAEKARKELLELE 710
Query: 119 AETKKQLESEIETKKQLESEAETKKQVDSQGETKKQVDSQAESKKQVD--AETKKQVDSQ 176
A + ES K + ES AE + + ++ +QA + + KK + +
Sbjct: 711 AMSMAV-ESTGNAKAEAESRAEAARIEGEGSVLQAKLKAQALAIETEAELERVKKVREME 769
Query: 177 VETKKQFDSQAETKKQLDSQVETKKQNDSQAETKKQNDSQAETKKQNDSQAEMEK 231
+ + +K Q + VE KK E + + Q ++ +
Sbjct: 770 LIYARAQLELEVSKAQQLANVEAKKF-KEMTEALGPGTIRDLAVAGPEMQVKLLQ 823
>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome
segregation, cell adhesion, kleisin, MIT cell cycle;
HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP:
c.37.1.12
Length = 430
Score = 34.3 bits (79), Expect = 0.037
Identities = 14/151 (9%), Positives = 53/151 (35%), Gaps = 5/151 (3%)
Query: 106 ESETETNKQVDNQAETKKQLESE---IETKKQLESEAETKKQVDSQGETKKQVDSQAESK 162
++ + + + + + LE+E I+ K L + + ++ ++ +
Sbjct: 116 DTSYKIDGKTVSYKDYSIFLENENILIKAKNFLVFQGDVEQIAAQSPVELSRMFEEVSGS 175
Query: 163 KQVDAETKKQVDSQVETKKQFDSQAETKKQLDSQVETKKQNDSQAETKKQNDSQAETKKQ 222
Q E ++ + + K + ++++ +++T K + Q + +
Sbjct: 176 IQYKKEYEELKEKIEKLSKSATESIKNRRRIHGELKTYKSPGLEVLF--QGPRGSRYDEA 233
Query: 223 NDSQAEMEKQFDSQAEAKKHLAQRYDDFMKE 253
+ + + +K + ++ K+
Sbjct: 234 EGRFEVINNETEQLKAEEKKILNQFLKIKKK 264
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 32.8 bits (74), Expect = 0.067
Identities = 13/77 (16%), Positives = 31/77 (40%), Gaps = 3/77 (3%)
Query: 163 KQVDAETKKQVDSQVETKKQFDSQAETKKQLDSQVETKKQNDSQAETKKQNDSQAETKKQ 222
++ E + + E +K+ K ++ + K + D + ++Q++ + K
Sbjct: 78 DRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKIN 137
Query: 223 NDSQAEMEKQFDSQAEA 239
N +K F Q +A
Sbjct: 138 N---RIADKAFYQQPDA 151
Score = 32.4 bits (73), Expect = 0.099
Identities = 13/79 (16%), Positives = 29/79 (36%), Gaps = 3/79 (3%)
Query: 102 SAAIESETETNKQVDNQAETKKQLES--EIETKKQLESEAETKKQVDSQ-GETKKQVDSQ 158
+ A E + E +K+L+ + E + KK ++ +QV+
Sbjct: 75 AQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKN 134
Query: 159 AESKKQVDAETKKQVDSQV 177
+ + D +Q D+ +
Sbjct: 135 KINNRIADKAFYQQPDADI 153
Score = 30.9 bits (69), Expect = 0.28
Identities = 13/77 (16%), Positives = 38/77 (49%), Gaps = 3/77 (3%)
Query: 123 KQLESEIET-KKQLESEAETKKQVDSQGETKKQVDSQAESKKQVDAETKKQVDSQVETKK 181
+L E E+ +K E + + +++D+ + +Q + + ++KK ++ ++Q + + K
Sbjct: 78 DRLTQEPESIRKWREEQRKRLQELDAASKVMEQ-EWREKAKKDLEEWNQRQSEQVEKNKI 136
Query: 182 Q-FDSQAETKKQLDSQV 197
+ +Q D+ +
Sbjct: 137 NNRIADKAFYQQPDADI 153
Score = 28.2 bits (62), Expect = 1.9
Identities = 15/80 (18%), Positives = 31/80 (38%), Gaps = 12/80 (15%)
Query: 117 NQAETKKQLESE------IETKKQLES--EAETKKQVDSQGETKKQVDSQAESKKQVDAE 168
QA+ Q E E E +K+L+ A + + + + KK ++ ++ +
Sbjct: 75 AQADRLTQ-EPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWN---QRQSEQ 130
Query: 169 TKKQVDSQVETKKQFDSQAE 188
+K + K F Q +
Sbjct: 131 VEKNKINNRIADKAFYQQPD 150
Score = 27.8 bits (61), Expect = 2.9
Identities = 14/73 (19%), Positives = 35/73 (47%), Gaps = 8/73 (10%)
Query: 191 KQLDSQVET-KKQNDSQAETKKQNDSQAETKKQ---NDSQAEMEKQFDSQAE--AKKHLA 244
+L + E+ +K + Q + ++ D+ ++ +Q ++ ++E+ Q+E K +
Sbjct: 78 DRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKIN 137
Query: 245 QRYDD--FMKELD 255
R D F ++ D
Sbjct: 138 NRIADKAFYQQPD 150
Score = 27.8 bits (61), Expect = 2.9
Identities = 8/56 (14%), Positives = 23/56 (41%), Gaps = 2/56 (3%)
Query: 86 IKKSEEILESKKIESPSAAIESETETNKQVDNQAETKK--QLESEIETKKQLESEA 139
+++ + + + E A + E N++ Q E K ++ +Q +++
Sbjct: 98 LQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQPDADI 153
>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 = 31.8 bits (71), Expect = 0.12
Identities = 9/30 (30%), Positives = 16/30 (53%), Gaps = 9/30 (30%)
Query: 86 IKKSEEILESK-KIESP-SA---AIESETE 110
+KK L++ K+ + SA AI++ E
Sbjct: 22 LKK----LQASLKLYADDSAPALAIKATME 47
Score = 29.9 bits (66), Expect = 0.56
Identities = 10/26 (38%), Positives = 16/26 (61%), Gaps = 4/26 (15%)
Query: 33 KTSGIKKLLAALMKRY--NYFPAASV 56
K + +KKL A+L K Y + PA ++
Sbjct: 19 KQA-LKKLQASL-KLYADDSAPALAI 42
>1ej6_B Lambda1; icosahedral, non-equivalence, dsRNA virus, methylase,
methyltransferase, guanylyltransferase, zinc finger,
icosahedral virus; 3.60A {Reovirus SP} SCOP: i.7.1.1
PDB: 2cse_V
Length = 1275
Score = 31.7 bits (71), Expect = 0.26
Identities = 25/200 (12%), Positives = 55/200 (27%), Gaps = 21/200 (10%)
Query: 69 KHEEAKFNVDSDKIDSLIKKSEEILESKKIESPSAAIESETETNKQVDNQAETKKQLESE 128
K + +D + S ++ + + ++ A E T +Q + +
Sbjct: 7 KTKGKSSGKGNDSTERSDDGSSQLRDKQNNKAGPATTEPGTSNREQYRARPGIASVQRAT 66
Query: 129 IETKKQLESEAETKKQVDSQGETKKQVDSQAESKKQVDAETKKQVDSQVETKKQFDSQAE 188
E+ + + V+ +E+K + D T+KQ ++K Q
Sbjct: 67 -ESAELPMKNNDEGTPDKKGNTRGDLVNEHSEAKDEADEATQKQAKDTDKSKAQVTYSDT 125
Query: 189 TKKQLDSQVETKKQ-NDSQAETKKQNDSQAETKKQNDSQAEME----------------- 230
+ + N+ + K + AE S+
Sbjct: 126 GINNANELSRSGNVDNEGGSNQKPMSTRIAEATSAIVSKHPARVGLPPTASSGHGYQCHV 185
Query: 231 --KQFDSQAEAKKHLAQRYD 248
S + H+A
Sbjct: 186 CSAVLFSPLDLDAHVASHGL 205
>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga
maritima} PDB: 3qg5_A 3tho_A*
Length = 365
Score = 31.0 bits (70), Expect = 0.39
Identities = 16/153 (10%), Positives = 43/153 (28%), Gaps = 2/153 (1%)
Query: 108 ETETNKQVDNQAETKKQLESEIETKKQLESEAETKKQVDSQGETKKQVDSQAESKKQV-- 165
E N + A ++ E+E +E + QGE K + S ++
Sbjct: 102 EILENGKKAAIAAKPTSVKQEVEKILGIEHRTFIRTVFLPQGEIDKLLISPPSEITEIIS 161
Query: 166 DAETKKQVDSQVETKKQFDSQAETKKQLDSQVETKKQNDSQAETKKQNDSQAETKKQNDS 225
D K+ ++E + + + + + + ++ +
Sbjct: 162 DVFQSKETLEKLEKLLKEKMKKLENEISSGGAGGAGGSLEKKLKEMSDEYNNLDLLRKYL 221
Query: 226 QAEMEKQFDSQAEAKKHLAQRYDDFMKELDYKE 258
+ + + +R ++ L
Sbjct: 222 FDKSNFSRYFTGRVLEAVLKRTKAYLDILTNGR 254
>3lj5_A Portal protein, protein GP1; DNA ejection, molecular motor, DNA
packaging podoviridae, virus assembly, tail tube, trunk
domain; 7.50A {Enterobacteria phage P22}
Length = 725
Score = 30.4 bits (67), Expect = 0.66
Identities = 21/130 (16%), Positives = 49/130 (37%), Gaps = 1/130 (0%)
Query: 112 NKQVDNQAETKKQLESEIETKKQLESEAETKKQVDSQGETKKQVDSQAESKKQVDAETKK 171
NKQ+ K + E + + + + ++ + QAE K +
Sbjct: 573 NKQLIQMGVKKPETPEEQQWLVEAQQAKQGQQDPAMVQAQGVLLQGQAELAKAQNQTLSL 632
Query: 172 QVDSQVETKKQFDSQAETKKQLDSQVETKKQNDSQAETKKQNDSQAETKKQNDSQAEMEK 231
Q+D + + Q A ++ + ++ KQ++ + K Q + + + AE+
Sbjct: 633 QID-AAKVEAQNQLNAARIAEIFNNMDLSKQSEFREFLKTVASFQQDRSEDARANAELLL 691
Query: 232 QFDSQAEAKK 241
+ D Q ++
Sbjct: 692 KGDEQTHKQR 701
>3iyd_F RNA polymerase sigma factor RPOD; transcription, initiation, class
I, activator, RNA polymeras holoenzyme, sigma70, open
complex, CAP, CRP; HET: DNA CMP; 19.80A {Escherichia
coli k-12}
Length = 613
Score = 30.4 bits (68), Expect = 0.73
Identities = 21/190 (11%), Positives = 70/190 (36%)
Query: 66 DKLKHEEAKFNVDSDKIDSLIKKSEEILESKKIESPSAAIESETETNKQVDNQAETKKQL 125
++++ EEA+ + + + + + S + + + + ++ ++ +
Sbjct: 149 NRVEAEEARLSDLITGFVDPNAEEDLAPTATHVGSELSQEDLDDDEDEDEEDGDDDSADD 208
Query: 126 ESEIETKKQLESEAETKKQVDSQGETKKQVDSQAESKKQVDAETKKQVDSQVETKKQFDS 185
++ I+ + E AE + Q +T K + ++ + + KQFD
Sbjct: 209 DNSIDPELAREKFAELRAQYVVTRDTIKAKGRSHATAQEEILKLSEVFKQFRLVPKQFDY 268
Query: 186 QAETKKQLDSQVETKKQNDSQAETKKQNDSQAETKKQNDSQAEMEKQFDSQAEAKKHLAQ 245
+ + + +V T+++ + ++ + + F++ K ++
Sbjct: 269 LVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNETSDTWFNAAIAMNKPWSE 328
Query: 246 RYDDFMKELD 255
+ D +E+
Sbjct: 329 KLHDVSEEVH 338
>3hxk_A Sugar hydrolase; alpha-beta protein., structural genomics, PSI-2,
protein structure initiative; 3.20A {Lactococcus lactis
subsp}
Length = 276
Score = 29.0 bits (65), Expect = 1.3
Identities = 4/37 (10%), Positives = 15/37 (40%), Gaps = 3/37 (8%)
Query: 46 KRYNYFPAASVLLKDAAQVLDKLKHEEAKFNVDSDKI 82
YN+ L++ V + ++ ++ +++
Sbjct: 88 TNYNFLSQN---LEEVQAVFSLIHQNHKEWQINPEQV 121
>2a6h_F RNA polymerase sigma factor RPOD; RNA polymerase holoenzyme,
streptolydigin, antibiotic, transcription regulation;
HET: STD; 2.40A {Thermus thermophilus} SCOP: a.4.13.1
a.4.13.2 a.177.1.1 PDB: 1smy_F* 1zyr_F* 1iw7_F* 2a69_F*
2a6e_F 2a68_F* 2be5_F* 2cw0_F 3eql_F* 3dxj_F* 1l9u_H
Length = 423
Score = 28.7 bits (64), Expect = 2.3
Identities = 19/175 (10%), Positives = 47/175 (26%), Gaps = 2/175 (1%)
Query: 71 EEAKFNVDSDKIDSLIKKSEEILESKKIESPSAAIESETETNKQVDNQAETKKQLESEIE 130
E +++++ + + + + E + +D + E + +I
Sbjct: 17 TEVLVQEEAEELPEFPEGEPDPDLEDPDLALEDDLLDLPEEGEGLDLEEEEEDLPIPKIS 76
Query: 131 TKKQLESEAETKKQVDSQGETKKQVDSQAESKKQVDAETKKQVDSQVETKKQFDSQAETK 190
T + QV T ++ A ++ KK + K
Sbjct: 77 TSDPVRQYLHEIGQVPLL--TLEEEVELARKVEEGMEAIKKLSEITGLDPDLIREVVRAK 134
Query: 191 KQLDSQVETKKQNDSQAETKKQNDSQAETKKQNDSQAEMEKQFDSQAEAKKHLAQ 245
++V + K + + K A++HL +
Sbjct: 135 ILGSARVRHIPGLKETLDPKTVEEIDQKLKSLPKEHKRYLHIAREGEAARQHLIE 189
>2fhp_A Methylase, putative; alpha-beta-alpha sandwich, structural
genomics, PSI, protein structure initiative; HET: MSE;
1.60A {Enterococcus faecalis} SCOP: c.66.1.46
Length = 187
Score = 27.5 bits (62), Expect = 3.5
Identities = 13/74 (17%), Positives = 30/74 (40%), Gaps = 11/74 (14%)
Query: 54 ASVLLKDAAQVLDKLKHEEAKFNV-------DSDKIDSLIKKSEEILESKKIESPSAAIE 106
V DA + L++ E+ +F++ +I S + E + +++ + A I
Sbjct: 96 FEVRKMDANRALEQFYEEKLQFDLVLLDPPYAKQEIVSQL----EKMLERQLLTNEAVIV 151
Query: 107 SETETNKQVDNQAE 120
ET+ ++
Sbjct: 152 CETDKTVKLPETIG 165
>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 = 27.8 bits (61), Expect = 3.7
Identities = 25/118 (21%), Positives = 48/118 (40%), Gaps = 4/118 (3%)
Query: 58 LKDAAQVLDKLKHEEAKFNVDSDKIDSLIKKSEEI---LESKKIESPSAAIESETETNKQ 114
KD +E ++ + L KK EE+ + E + E+E E +++
Sbjct: 308 FKDTDPDSKPFSLQETYEAKRNEFLGELQKKEEEMRQMFVQRVKEKEAELKEAEKELHEK 367
Query: 115 VDNQAETKKQLESEIETK-KQLESEAETKKQVDSQGETKKQVDSQAESKKQVDAETKK 171
D + + + ++E K K L+ E KQ + E + SQA + + + +K
Sbjct: 368 FDRLKKLHQDEKKKLEDKKKSLDDEVNAFKQRKTAAELLQSQGSQAGGSQTLKRDKEK 425
>3a7r_A Lipoate-protein ligase A; adenylate-forming enzyme, lipoic acid,
ATP-binding, cytoplasm, nucleotide-binding, transferase,
lipoyl; HET: LAQ; 2.05A {Escherichia coli} PDB: 1x2h_A*
3a7a_A* 1x2g_A*
Length = 337
Score = 27.9 bits (62), Expect = 3.7
Identities = 11/67 (16%), Positives = 27/67 (40%), Gaps = 1/67 (1%)
Query: 75 FNVDSDKIDSLIKKSEEILESKKIESPSAAIESETETNKQVDNQAETKKQLESEIETKKQ 134
N D ++ + + ++ L +K I S + + + TE + ++ + + +
Sbjct: 154 LNADLSRLANYLNPDKKKLAAKGITSVRSRVTNLTELLPGITHE-QVCEAITEAFFAHYG 212
Query: 135 LESEAET 141
EAE
Sbjct: 213 ERVEAEI 219
>1ij5_A Plasmodial specific LAV1-2 protein; fourty kDa calcium binding
protein, CBP40, metal binding protein; 3.00A {Physarum
polycephalum} SCOP: a.39.1.9 PDB: 1ij6_A
Length = 323
Score = 27.5 bits (61), Expect = 4.5
Identities = 17/118 (14%), Positives = 49/118 (41%), Gaps = 11/118 (9%)
Query: 128 EIETKKQLESEAETKKQVDSQGETKKQVD----SQAESKKQVDAETKKQVDSQVETKKQF 183
EI +++ + EA KK ++ E +K++D + E + +++A+ ++ Q ++
Sbjct: 1 EIFSQELTQREANVKKVHENLEELQKKLDHTSFAHKEDRDRLEAQIAQKEQEQKAKLAEY 60
Query: 184 DSQAETKKQLDSQVETKKQNDSQAETKKQNDSQAETKKQNDSQAEMEKQFDSQAEAKK 241
D + + + ++ + + D+ AE ++ ++E +
Sbjct: 61 DQKVQNE-------FDARERAEREREAARGDAAAEKQRLASLLKDLEDDASGYNRLRP 111
>2gai_A DNA topoisomerase I; zinc ribbon; HET: DNA; 1.70A {Thermotoga
maritima} PDB: 2gaj_A*
Length = 633
Score = 27.5 bits (62), Expect = 4.8
Identities = 12/36 (33%), Positives = 16/36 (44%), Gaps = 4/36 (11%)
Query: 227 AEMEKQFDSQAEAKKH----LAQRYDDFMKELDYKE 258
AEMEK D + KK L + Y+ F D +
Sbjct: 512 AEMEKDLDEVEQGKKTDKIVLREFYESFSSVFDRND 547
>3haj_A Human pacsin2 F-BAR; pacsin,syndapin,FAP52,F-BAR, alternative
splicing, coiled coil, cytoplasmic vesicle, endocytosis,
phosphoprotein, polymorphism; 2.78A {Homo sapiens}
Length = 486
Score = 27.4 bits (59), Expect = 6.3
Identities = 16/142 (11%), Positives = 54/142 (38%)
Query: 113 KQVDNQAETKKQLESEIETKKQLESEAETKKQVDSQGETKKQVDSQAESKKQVDAETKKQ 172
+ + +E ++++ + + + K+ Q + +AE + + +
Sbjct: 88 SEAERVSELHLEVKASLMNDDFEKIKNWQKEAFHKQMMGGFKETKEAEDGFRKAQKPWAK 147
Query: 173 VDSQVETKKQFDSQAETKKQLDSQVETKKQNDSQAETKKQNDSQAETKKQNDSQAEMEKQ 232
+VE K+ A +++L E + D ++ Q + +K + +++
Sbjct: 148 KLKEVEAAKKAHHAACKEEKLAISREANSKADPSLNPEQLKKLQDKIEKCKQDVLKTKEK 207
Query: 233 FDSQAEAKKHLAQRYDDFMKEL 254
++ + +Y + M+++
Sbjct: 208 YEKSLKELDQGTPQYMENMEQV 229
>1l9z_H Sigma factor SIGA; helix-turn-helix, coiled-coil, transcription/DNA
complex; 6.50A {Thermus aquaticus} SCOP: i.8.1.1
Length = 438
Score = 26.8 bits (59), Expect = 8.8
Identities = 22/204 (10%), Positives = 60/204 (29%), Gaps = 23/204 (11%)
Query: 65 LDKLKHEEAKFNVDSDKIDSLIKKSEEILESKKIESPSAAIESETETNKQVDNQAETKKQ 124
+ K K ++ ++ +K+ E + E + E E + E +
Sbjct: 1 MKKSKSKKKAAKAQEVEVKEPVKEPEPLPELEAAEDLQDLPEPDPELLASEPELEDLADP 60
Query: 125 LESEIETKKQLESEAET--KKQVDSQGETKKQVDSQAESKKQVDAETKKQVDSQVETKKQ 182
L+ E + L E +++ + D + ++ ++ +++ ++
Sbjct: 61 LDLEGPLEADLLPEEGLLEEEEEELSLPKVSTSDPVRQYLHEIGQVPLLTLEEEIDLARK 120
Query: 183 FDSQAETKKQLDSQVETKKQNDSQAETKKQNDSQAETKKQNDSQAEMEKQFDSQA----- 237
+ E K+L ++ + K + K + K +
Sbjct: 121 VEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQKIPGLKEKPDPKTVEEVDGKLKS 180
Query: 238 ----------------EAKKHLAQ 245
A++HL +
Sbjct: 181 LPKELKRYLHIAREGEAARQHLIE 204
>3ef1_A RNA polymerase II subunit A C-terminal domain phosphatase; CTD,
FCPH, BRCT, hydrolase, BEF3, acylphosphate analog,
cobalt, magnesium; HET: BFD; 2.15A {Schizosaccharomyces
pombe}
Length = 442
Score = 26.9 bits (58), Expect = 8.8
Identities = 14/128 (10%), Positives = 33/128 (25%), Gaps = 3/128 (2%)
Query: 45 MKRYNYFPAASVLLKDAAQVLDKLKHEEAKFNVDSDKIDSLIKKSEEILESKKIESPSAA 104
+ Y +F + L K + + +I S + + + E+P
Sbjct: 174 VVPYEFFVGIG---DINSNFLAKSTPLPEQEQLIPLEIPKDEPDSVDEINEENEETPEYD 230
Query: 105 IESETETNKQVDNQAETKKQLESEIETKKQLESEAETKKQVDSQGETKKQVDSQAESKKQ 164
+ + +T + + E E ++ Q + Q +
Sbjct: 231 SSNSSYAQDSSTIPEKTLLKDTFLQNREALEEQNKERVTALELQKSERPLAKQQNALLED 290
Query: 165 VDAETKKQ 172
T
Sbjct: 291 EGKPTPSH 298
>3d2l_A SAM-dependent methyltransferase; ZP_00538691.1, structural G joint
center for structural genomics, JCSG; HET: MSE; 1.90A
{Exiguobacterium sibiricum 255-15}
Length = 243
Score = 26.6 bits (59), Expect = 8.9
Identities = 6/18 (33%), Positives = 11/18 (61%)
Query: 241 KHLAQRYDDFMKELDYKE 258
+ A YD+ M+++ Y E
Sbjct: 5 EQFAYVYDELMQDVPYPE 22
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
0.298 0.115 0.284
Gapped
Lambda K H
0.267 0.0601 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,196,697
Number of extensions: 165288
Number of successful extensions: 454
Number of sequences better than 10.0: 1
Number of HSP's gapped: 371
Number of HSP's successfully gapped: 123
Length of query: 265
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 173
Effective length of database: 4,133,061
Effective search space: 715019553
Effective search space used: 715019553
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 17 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.6 bits)
S2: 56 (25.6 bits)