RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2705
(203 letters)
>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 = 36.0 bits (82), Expect = 0.007
Identities = 30/242 (12%), Positives = 63/242 (26%), Gaps = 82/242 (33%)
Query: 3 DLMKGEMPDLMKHEMPDLMEEEKQELLDLMKDERY-------D----------------- 38
D D + + + EL L+K + Y
Sbjct: 210 DPNWTSRSDHSSNI-KLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKI 268
Query: 39 LM-------------KNEKPDLMKEERLDLMKEEKLD----WMKNEKRDLMKEEK---PD 78
L+ + + L +E ++ +DL +E P
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPR 328
Query: 79 LM----KEKKPDLKEIPPWKGVMKDERYDLMKNEKPDLMKDEKLDLMENEMPDLMKDEKH 134
+ + + L WK V D+ +++ L+ P +
Sbjct: 329 RLSIIAESIRDGLATWDNWKHVNCDKLTTIIE------SSLNVLE------PAEYRKMFD 376
Query: 135 DLV---KDEK--PDLKEILPWNGVMKDERYDLMKNEKPDLMKEERLDLIQDKKYGLIKER 189
L L ++ W V+K + ++ + KY L++++
Sbjct: 377 RLSVFPPSAHIPTILLSLI-WFDVIKSDVMVVVN---------------KLHKYSLVEKQ 420
Query: 190 PD 191
P
Sbjct: 421 PK 422
Score = 33.7 bits (76), Expect = 0.043
Identities = 30/192 (15%), Positives = 62/192 (32%), Gaps = 40/192 (20%)
Query: 13 MKHEMPDLMEEEKQELLDLMKDERYDLMKNEK-----------PDLMKEE--RLDLMKEE 59
+ H L +E + LL D R + E + +++ D K
Sbjct: 291 LDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHV 350
Query: 60 KLDWMKNEKRDLMKEEKPDLMKEKKPDLK------EIPP------WKGVMKDERYDLMK- 106
D + + +P ++ L IP W V+K + ++
Sbjct: 351 NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNK 410
Query: 107 -NEKPDLMKDEKLDLMENEMPDLMKDEKHDLVKDEKPDL-KEILPWNGVMKDERYDLMKN 164
++ + K K + +P + + K L + + L + I+ + Y++ K
Sbjct: 411 LHKYSLVEKQPKESTI--SIPSIYLELKVKL--ENEYALHRSIV--------DHYNIPKT 458
Query: 165 EKPDLMKEERLD 176
D + LD
Sbjct: 459 FDSDDLIPPYLD 470
Score = 31.0 bits (69), Expect = 0.27
Identities = 26/196 (13%), Positives = 60/196 (30%), Gaps = 52/196 (26%)
Query: 13 MKHEMPDLMEEEKQELLDLMKDERYDLMKNEKPDLMKE--ERLDLMKEE--------KLD 62
+ + K D + + +P ++ +RL + L
Sbjct: 336 SIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLI 395
Query: 63 WMKNEKRDLMKEEKPDLMKE--KKPDLKEIPPWKGVMKDERYDLMKNEKPDLMKDEKLDL 120
W K D+M ++ + K +++ P K+ + P + + K+ L
Sbjct: 396 WFDVIKSDVM-----VVVNKLHKYSLVEKQP------KESTISI-----PSIYLELKVKL 439
Query: 121 MENEMPDLMKDEKHD-LVKDEKPDLKEILPWNGVMKDER---------YDLMKNEKPDLM 170
+ H +V + ++ + + ++ + L E P+ M
Sbjct: 440 EN-------EYALHRSIV--DHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERM 490
Query: 171 KEER---LDL--IQDK 181
R LD ++ K
Sbjct: 491 TLFRMVFLDFRFLEQK 506
Score = 29.4 bits (65), Expect = 1.0
Identities = 9/56 (16%), Positives = 23/56 (41%), Gaps = 8/56 (14%)
Query: 23 EEKQELLDLMKDERYDLMKN--EKPDLMKEERLDLMKEEKLDWMKNEKRDLMKEEK 76
+ +L++++ Y + N + D +L + ++ E R L+K +
Sbjct: 193 NSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI------HSIQAELRRLLKSKP 242
Score = 28.3 bits (62), Expect = 2.3
Identities = 11/95 (11%), Positives = 31/95 (32%), Gaps = 26/95 (27%)
Query: 95 GVMKDERYDLMKNEKPDLMKDEKLDLMENEMPDLMKDEKHDLVKDEKPDLKEILPWNGVM 154
G + + D++ + + + D ++ D+ K ++
Sbjct: 12 GEHQYQYKDILSVFEDAFVDN--FDC--KDVQDMPK---------------------SIL 46
Query: 155 KDERYDLMKNEKPDLMKEERL-DLIQDKKYGLIKE 188
E D + K + RL + K+ ++++
Sbjct: 47 SKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQK 81
Score = 27.1 bits (59), Expect = 4.7
Identities = 24/158 (15%), Positives = 50/158 (31%), Gaps = 38/158 (24%)
Query: 10 PDLMKHEMPDLMEEEKQELLDLMKD-----ERYDLMKNEKPD------------------ 46
P +P + E K +L + + Y++ K D
Sbjct: 421 PKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHH 480
Query: 47 LMK---EERLDLMKEEKLD--WMKNE-KRDLMKEEKPDLMKEKKPDLKEIPPWKGVMKDE 100
L ER+ L + LD +++ + + D + LK +
Sbjct: 481 LKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLK---------FYK 531
Query: 101 RYDLMKNEKPDLMKDEKLDLMENEMPDLMKDEKHDLVK 138
Y + K + + + LD + +L+ + DL++
Sbjct: 532 PYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLR 569
Score = 26.7 bits (58), Expect = 7.1
Identities = 23/153 (15%), Positives = 50/153 (32%), Gaps = 18/153 (11%)
Query: 13 MKHEMPDLMEEEKQELLDLMKDERYDLMKNEKPDLMKEERLDLMKEEKLDWMKNEKRDLM 72
M E + + K L + + D+ K ++ +E++D + K +
Sbjct: 7 MDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKS----ILSKEEIDHIIMSKDAVS 62
Query: 73 K--------EEKPDLMKEK--KPDLKEIPPWKGVMKDERYDLMKNEKPDLMKDEKLDLME 122
K + M +K + L+ + +M + + + M E+ D +
Sbjct: 63 GTLRLFWTLLSKQEEMVQKFVEEVLRINYKF--LMSPIKTEQRQPSMMTRMYIEQRDRLY 120
Query: 123 NEMPDLMKD--EKHDLVKDEKPDLKEILPWNGV 153
N+ K + + L E+ P V
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNV 153
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 28.9 bits (65), Expect = 1.3
Identities = 19/122 (15%), Positives = 47/122 (38%), Gaps = 3/122 (2%)
Query: 21 MEEEKQELLDLMKDERYDLMKNEKPDLMKEERLDLMKEEKLDWMKNEKRDLMKEEKPDLM 80
+ E+ L E L +++ L E ++ ++ E L ++E
Sbjct: 947 LLEKMNNLEITYSTETEKL-RSDVERLRMSEEEAKNATNRVLSLQEEIAKL-RKELHQTQ 1004
Query: 81 KEKKPDLKEIPPWKGVMKDERYDLMKNEKPDLMKDEKLD-LMENEMPDLMKDEKHDLVKD 139
EKK + +K + +L + + E+L+ + ++ ++ + + LV++
Sbjct: 1005 TEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELNRRIHDQAKEITETMEKKLVEE 1064
Query: 140 EK 141
K
Sbjct: 1065 TK 1066
>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 = 27.1 bits (60), Expect = 5.2
Identities = 31/177 (17%), Positives = 73/177 (41%), Gaps = 13/177 (7%)
Query: 21 MEEEKQELLDLMKDERYDLMKNEKPDLMKEERLDLMKEEKLDWMKNEKRDLMKEEKPDLM 80
M+++ +L + +++E K + + + ++ M+++ + M+++ L KE K L+
Sbjct: 953 MQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDD-ILIMEDQNNKLTKERK--LL 1009
Query: 81 KEKKPDLKEIPPWKGVMKDERYDLMKNEKPDLMK-----DEKLDLMENEMPDLMKDEKHD 135
+E+ DL ++E+ + K + +L E +L K K
Sbjct: 1010 EERVSDLTT----NLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEK-IKRK 1064
Query: 136 LVKDEKPDLKEILPWNGVMKDERYDLMKNEKPDLMKEERLDLIQDKKYGLIKERPDL 192
L + ++I + + + L K E+ RL+ +K +K+ +L
Sbjct: 1065 LEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIREL 1121
>3n6m_A RNA-dependent RNA polymerase; EV71, RDRP, GTP, transferase; HET:
GTP; 2.50A {Human enterovirus 71} PDB: 3n6l_A* 3n6n_A*
Length = 462
Score = 26.6 bits (58), Expect = 5.8
Identities = 22/123 (17%), Positives = 41/123 (33%), Gaps = 16/123 (13%)
Query: 1 MSDLMKGEMPDLMKHEMPDLMEEEKQELLDLMKDERYDLMKNEKPDLMKEERLDLMKEEK 60
+ + +E + ++E + +K L N M+E E
Sbjct: 54 FEQALFSKYVGNTLYEPDEYIKEAALHYANQLKQ----LEINTSQMSMEEACYGTENLEA 109
Query: 61 LDW----------MKNEKRDLMKEEKPDLMKEKKPDLKE--IPPWKGVMKDERYDLMKNE 108
+D + +KRD++ D+ K K K P+ +KDE + K +
Sbjct: 110 IDLHTSAGYPYSALGIKKRDILDPTTRDVSKMKFYMDKYGLDLPYSTYVKDELRSIDKIK 169
Query: 109 KPD 111
K
Sbjct: 170 KGK 172
>4dn7_A ABC transporter, ATP-binding protein; structural genomics,
protein structure initiative, NEW YORK structural
genomix research consortium; HET: 1PE; 1.60A
{Methanosarcina maze}
Length = 429
Score = 26.9 bits (60), Expect = 5.8
Identities = 7/58 (12%), Positives = 23/58 (39%), Gaps = 2/58 (3%)
Query: 35 ERYDLMKNEKPDLMKEERLDLMKEEKLDWMKNEKRDLMKEEKPDLMKEKKPDLKEIPP 92
E + + ++R + E+K + ++ + + +E + + DL+ +
Sbjct: 16 ENLYFQSMQTEQVSLKKRAESAAEKKAAFGEDFELEKYEEGSK--VSKPIEDLQSLDE 71
>1vko_A Inositol-3-phosphate synthase; CE21227, structural genomics,
protein structure initiative, PSI, joint center for
structu genomics; HET: NAD; 2.30A {Caenorhabditis
elegans} SCOP: c.2.1.3 d.81.1.3
Length = 537
Score = 26.7 bits (58), Expect = 6.9
Identities = 10/61 (16%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 77 PDLMKEKKPDLKEIPPWKGVMKDERYDLMKNEKPDLMKDE--KLDLMENEMPDLMKDEKH 134
P+L ++ +P ++ I P + + + ++ + + KL+ +E+ D+ K ++
Sbjct: 178 PELQEKLRPFMEPIVPLPSIYYPDFIASNQGDRANNVIPGDNKLEHLEHIRADIRKFKQE 237
Query: 135 D 135
Sbjct: 238 H 238
>3lpm_A Putative methyltransferase; structural genomics, protein structure
initiative, NEW YORK structural genomix research
consortium, nysgxrc; 2.40A {Listeria monocytogenes}
Length = 259
Score = 26.3 bits (58), Expect = 7.8
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 162 MKNEKPDLMKEERLDLIQDKKYGLI 186
M EK L+ +ERLD + + +I
Sbjct: 1 MSLEKLKLIGDERLDYLLAENLRII 25
>2qgq_A Protein TM_1862; alpha-beta protein, structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium; HET: CXS; 2.00A {Thermotoga
maritima MSB8}
Length = 304
Score = 26.0 bits (58), Expect = 9.1
Identities = 9/66 (13%), Positives = 26/66 (39%), Gaps = 18/66 (27%)
Query: 22 EEEKQELLDLMKDERYD----------------LMKNEKPDLMKEERLD-LMKE-EKLDW 63
EE+ +EL +++ ++D +K + M + R + L+ ++
Sbjct: 170 EEDFEELKQFVEEIQFDKLGAFVYSDEEGTVAFNLKEKVDPEMAKRRQEELLLLQAEISN 229
Query: 64 MKNEKR 69
+ ++
Sbjct: 230 SRLDRF 235
>1cb1_A Calbindin D9K; calcium-binding protein; NMR {Sus scrofa} SCOP:
a.39.1.1
Length = 78
Score = 24.6 bits (54), Expect = 9.6
Identities = 9/33 (27%), Positives = 17/33 (51%)
Query: 101 RYDLMKNEKPDLMKDEKLDLMENEMPDLMKDEK 133
+Y + + L K+E L++ E P L+K +
Sbjct: 15 KYAAKEGDPNQLSKEELKQLIQAEFPSLLKGPR 47
>2h2k_A Protein S100-A13; calcium binding protein, metal binding protein;
2.00A {Homo sapiens} PDB: 1yur_A 1yus_A 1yut_A 1yuu_A
2egd_A 2k8m_B 2ki4_B* 2ki6_C* 2kot_A* 2l5x_B 2cxj_A
Length = 106
Score = 25.2 bits (55), Expect = 9.8
Identities = 8/33 (24%), Positives = 16/33 (48%)
Query: 101 RYDLMKNEKPDLMKDEKLDLMENEMPDLMKDEK 133
+ + K L +E +L+ ++P L+KD
Sbjct: 30 TFARQEGRKDSLSVNEFKELVTQQLPHLLKDVG 62
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
0.312 0.135 0.386
Gapped
Lambda K H
0.267 0.0439 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,317,083
Number of extensions: 207871
Number of successful extensions: 829
Number of sequences better than 10.0: 1
Number of HSP's gapped: 791
Number of HSP's successfully gapped: 153
Length of query: 203
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 114
Effective length of database: 4,216,824
Effective search space: 480717936
Effective search space used: 480717936
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 55 (25.7 bits)