RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15690
(236 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 = 45.2 bits (106), Expect = 1e-05
Identities = 41/258 (15%), Positives = 80/258 (31%), Gaps = 65/258 (25%)
Query: 8 YTLDMEAEQKNLT-------FQEKHAERLKRLKEIHLKRNESRQ-LNHQEVVEEDRRKQL 59
+ +D E + F++ + K++ ++ + L+ +E+ D
Sbjct: 5 HHMDFETGEHQYQYKDILSVFEDAFVDNFD-CKDV---QDMPKSILSKEEI---DHIIMS 57
Query: 60 PNNWEARKRKAEWIL--KDEEQRQKALEEG--EDYERVKMLNMTVAEAEKFNKKKKNPDV 115
+ + + W L K EE QK +EE +Y+ + +++ P +
Sbjct: 58 KDA-VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFL---------MSPIKTEQRQPSM 107
Query: 116 GFSDYQQATARQYN---RLVKQMKPDMSKYEEQKKKL-------GPAFYGDQ---KTILQ 162
Y + R YN K + Y + ++ L G KT +
Sbjct: 108 MTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVA 167
Query: 163 GL---------------------HSDRPEAVDKMVEDLEKQISKREKYSRRRTHNDDADI 201
+ + PE V +M++ L QI + N I
Sbjct: 168 LDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI 227
Query: 202 DYINE--RNMKFNKKLER 217
I R + +K E
Sbjct: 228 HSIQAELRRLLKSKPYEN 245
Score = 36.0 bits (82), Expect = 0.009
Identities = 26/221 (11%), Positives = 66/221 (29%), Gaps = 36/221 (16%)
Query: 21 FQEKHAERLKRLKEI---HLKRNESRQLNHQEVV-EEDRR---KQLPNNWEARKRKAEWI 73
++ + ++L + E L+ E R++ + V L W + +
Sbjct: 347 WKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMV 406
Query: 74 LKDEEQRQKALEEGEDYERVKMLNMTVAEAEKFNKKKKNPDVGFSDYQQATARQYNRLVK 133
+ ++ + +E+ + + ++ + K + Y + L+
Sbjct: 407 VVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIP 466
Query: 134 QMKPDMSKY-------------EEQKKKLGPAFYGD-----QKTILQGLHSDRPEAVDKM 175
P + +Y ++ L + D QK + ++
Sbjct: 467 ---PYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNT 523
Query: 176 VEDLEKQISKREKYSRRRTHNDDADIDYINERNMKFNKKLE 216
++ L + Y ND +N + F K+E
Sbjct: 524 LQQL-------KFYKPYICDNDPKYERLVNAI-LDFLPKIE 556
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 40.9 bits (96), Expect = 2e-04
Identities = 29/223 (13%), Positives = 82/223 (36%), Gaps = 26/223 (11%)
Query: 12 MEAEQKNLTFQEKHAERLKRLKEIHLKRNESRQLNHQEVVEEDRRKQLPNNWEARKRKAE 71
+ + K L+ + + E ++L + +R K+L E + + +
Sbjct: 876 GWLARVHYHRTLKAIVYLQCCYRRMMAKRELKKLKIEAR-SVERYKKLHIGLENKIMQLQ 934
Query: 72 WILKDEEQRQKALEEGEDYERVKMLNMTVAEAEKFNKKKKNPDVGFSDYQQATAR--QYN 129
+ ++ + K+L E + + E EK + + + + AT R
Sbjct: 935 RKIDEQNKEYKSLLE----KMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQ 990
Query: 130 RLVKQMKPDMSKYEEQKKKLGPAFYGDQKTILQGLHSDRPEAVDKMVEDLEKQISKREKY 189
+ +++ ++ + + +KK + E DK + E+ +S+ ++
Sbjct: 991 EEIAKLRKELHQTQTEKKTIE-------------------EWADKYKHETEQLVSELKEQ 1031
Query: 190 SRRRTHNDDADIDYINERNMKFNKKLERFYGEHTAEIKQNLER 232
+ + I+++ + + +E+ E T +++ +L
Sbjct: 1032 NTLLKTEKEELNRRIHDQAKEITETMEKKLVEETKQLELDLND 1074
>3b5q_A Putative sulfatase YIDJ; NP_810509.1, structural genomics, joint
center for structural genomics, JCSG; HET: EPE; 2.40A
{Bacteroides thetaiotaomicron vpi-5482}
Length = 482
Score = 32.7 bits (75), Expect = 0.10
Identities = 15/73 (20%), Positives = 30/73 (41%), Gaps = 6/73 (8%)
Query: 11 DMEA---EQKNLTFQEKHAERLKRLKEI---HLKRNESRQLNHQEVVEEDRRKQLPNNWE 64
DM+ E+KNL K+++ L + + ++ R++ + + + R P
Sbjct: 410 DMKKDPGERKNLAKDPKYSKILAEHRALLDDYITRSKDDYRSLKVDADPRCRNHTPGYPS 469
Query: 65 ARKRKAEWILKDE 77
A ILK +
Sbjct: 470 HEGPGAREILKRK 482
>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 = 31.9 bits (72), Expect = 0.20
Identities = 29/139 (20%), Positives = 40/139 (28%), Gaps = 48/139 (34%)
Query: 78 EQRQKALEEGEDYERVKML---NMTVAEAEK----FNKK-KKNPDVGFSDYQQATARQY- 128
+ +LE E ML N+T + + N V S A+
Sbjct: 322 SILEDSLENNEGVPS-PMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVN--GAKNLV 378
Query: 129 ------------NRLVKQMKP---DMSK--YEEQKKKLGPAFYGDQKTILQGL------H 165
L K P D S+ + E+K K F L H
Sbjct: 379 VSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRF----------LPVASPFH 428
Query: 166 SD--RPEAVDKMVEDLEKQ 182
S P A D + +DL K
Sbjct: 429 SHLLVP-ASDLINKDLVKN 446
>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 = 31.7 bits (72), Expect = 0.22
Identities = 33/194 (17%), Positives = 72/194 (37%), Gaps = 22/194 (11%)
Query: 1 MSITLTKYTLDMEAEQKNLTFQEKHAERLKRLKEIHLKRNESRQLNHQEVVEEDRRKQLP 60
L + + + L E+ +L K + ++ ++ + E E R
Sbjct: 862 KDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRLAAK 921
Query: 61 NNW-EARKRKAEWILKDEEQRQKALEEGED--YERVKMLNMTVAEAEKFNKKKKNPDVGF 117
E + E +++EE+R + L+ + +++ L + E E +K
Sbjct: 922 KQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKL------- 974
Query: 118 SDYQQATARQYNRLVKQMKPDMSKYEEQKKKLGPAFYGDQKTILQGLHSDRPE---AVDK 174
Q + +K+M+ D+ E+Q KL ++ +L+ SD ++
Sbjct: 975 ----QLEKVTADGKIKKMEDDILIMEDQNNKL-----TKERKLLEERVSDLTTNLAEEEE 1025
Query: 175 MVEDLEKQISKREK 188
++L K +K E
Sbjct: 1026 KAKNLTKLKNKHES 1039
>3hhi_A Cathepsin B-like cysteine protease; occluding loop, hydrolase,
THIO protease; HET: 074; 1.60A {Trypanosoma brucei}
PDB: 3mor_A*
Length = 325
Score = 29.3 bits (66), Expect = 1.1
Identities = 14/61 (22%), Positives = 29/61 (47%), Gaps = 5/61 (8%)
Query: 8 YTLDMEAEQKNLTFQEKHAERLKRLKEIHLKRNESRQLNHQEVVEEDRRKQLPNNWEARK 67
+ + +N+T +E KRL + K N + L + EE+ R LP+++++ +
Sbjct: 26 WKAKYDGVMQNITLRE-----AKRLNGVIKKNNNASILPKRRFTEEEARAPLPSSFDSAE 80
Query: 68 R 68
Sbjct: 81 A 81
>2owo_A DNA ligase; protein-DNA complex, ligase-DNA complex; HET: DNA OMC
AMP; 2.30A {Escherichia coli}
Length = 671
Score = 29.0 bits (66), Expect = 1.6
Identities = 11/54 (20%), Positives = 21/54 (38%), Gaps = 7/54 (12%)
Query: 14 AEQKNLTFQEKHAERLKRLKEIHLKRNESRQL--NHQEVVE-----EDRRKQLP 60
+ + H RL + K+ L ++ L + +EV+ E+ R L
Sbjct: 228 GVLEGGELPDTHLGRLLQFKKWGLPVSDRVTLCESAEEVLAFYHKVEEDRPTLG 281
>3iyk_A VP5; icosahedral virus; HET: MNA; 7.00A {Bluetongue virus}
Length = 526
Score = 28.4 bits (63), Expect = 2.0
Identities = 21/99 (21%), Positives = 41/99 (41%), Gaps = 7/99 (7%)
Query: 11 DMEAEQKNLTFQEKHAERLKRLKEIHLKRNESRQLNHQEVVEEDRRKQLPNNWEARKRKA 70
++E EQ+N + K+ +++K L+ + +N + E + KQ +
Sbjct: 101 ELEDEQRNELVRLKYNDKIKEKFGKELEEVYNF-MNGEANAEIEDEKQF-DILNKAVTSY 158
Query: 71 EWILKDEEQR----QKALEEGEDYERVKMLNMTVAEAEK 105
IL +E+ + AL++ E ER + V E
Sbjct: 159 NKILTEEDLQMRRLATALQK-EIGERTHAETVMVKEYRD 196
>2vqr_A Putative sulfatase; phosphonate monoester hydrolase, hydrolase,
plasmid, formylglycine, phosphodiesterase; 1.42A
{Rhizobium leguminosarum BV} PDB: 2w8s_A
Length = 543
Score = 28.6 bits (64), Expect = 2.1
Identities = 9/54 (16%), Positives = 18/54 (33%), Gaps = 6/54 (11%)
Query: 11 DMEA---EQKNLTFQEKHAERLKRLKEI---HLKRNESRQLNHQEVVEEDRRKQ 58
D+ E NL +A ++ + ++ R L H E ++
Sbjct: 488 DLRHDPNEFTNLADDPAYAALVRDYAQKALSWRLKHADRTLTHYRSGPEGLSER 541
>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic
reticulum, protein folding, tetratricopeptiderepeat, J
domain, unfolded protein respons; 3.00A {Homo sapiens}
PDB: 2y4u_A
Length = 450
Score = 28.5 bits (64), Expect = 2.1
Identities = 24/99 (24%), Positives = 44/99 (44%), Gaps = 11/99 (11%)
Query: 60 PNNWEARKRKAEWILKDEEQR------QKALEEGEDYERVKMLNMTVAEAEKFNKKKKNP 113
P+N A K +AE L +E + A E E+ ++++ + A+ +K++
Sbjct: 326 PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIRE-GLEKAQRLLKQSQKRDY 384
Query: 114 DVGFSDYQQATARQ----YNRLVKQMKPDMSKYEEQKKK 148
+ A ++ Y +L Q PD + EE+KKK
Sbjct: 385 YKILGVKRNAKKQEIIKAYRKLALQWHPDNFQNEEEKKK 423
>2h1v_A Ferrochelatase; rossman fold, PI-helix, lyase; 1.20A {Bacillus
subtilis} PDB: 2hk6_A 1c1h_A* 1ld3_A 1n0i_A 1ak1_A
3goq_A 1doz_A 2q2n_A* 3m4z_A 2h1w_A 2ac2_A 2q3j_A*
2ac4_A 2q2o_A* 1c9e_A* 2c8j_A
Length = 310
Score = 28.3 bits (64), Expect = 2.4
Identities = 7/22 (31%), Positives = 10/22 (45%)
Query: 76 DEEQRQKALEEGEDYERVKMLN 97
D E + + G Y R +M N
Sbjct: 270 DYECKVVTDDIGASYYRPEMPN 291
>3r5l_A Deazaflavin-dependent nitroreductase; PA-824, split barrel-like
fold, DUF385, deazaflavin-dependen nitroreductase,
nitroimidazoles; HET: MES; 1.55A {Mycobacterium
tuberculosis} PDB: 3r5p_A 3r5w_A* 3r5r_A*
Length = 122
Score = 26.8 bits (59), Expect = 3.1
Identities = 10/78 (12%), Positives = 28/78 (35%)
Query: 50 VVEEDRRKQLPNNWEARKRKAEWILKDEEQRQKALEEGEDYERVKMLNMTVAEAEKFNKK 109
+ + R + + ++ W L + + ++ ++ + + T E ++ +
Sbjct: 37 FLRDGGRVIVAASKGGAEKNPMWYLNLKANPKVQVQIKKEVLDLTARDATDEERAEYWPQ 96
Query: 110 KKNPDVGFSDYQQATARQ 127
+ DYQ T R
Sbjct: 97 LVTMYPSYQDYQSWTDRT 114
>3r5z_A Putative uncharacterized protein; split barrel-like fold, DUF385,
deazaflavin-dependent reduct F420-dependent reductase,
FDR; HET: F42; 1.50A {Nocardia farcinica}
Length = 145
Score = 27.3 bits (60), Expect = 3.2
Identities = 11/78 (14%), Positives = 27/78 (34%)
Query: 50 VVEEDRRKQLPNNWEARKRKAEWILKDEEQRQKALEEGEDYERVKMLNMTVAEAEKFNKK 109
VE + + + + W + + L +G + +T E + ++
Sbjct: 59 RVEHNGEYAVVASLGGAPKHPVWYHNIKAEPHVELRDGTEVGDYTAREVTGEEKRVWWER 118
Query: 110 KKNPDVGFSDYQQATARQ 127
+++YQ T R+
Sbjct: 119 AVEVWPDYAEYQTKTTRE 136
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.4 bits (60), Expect = 3.6
Identities = 12/64 (18%), Positives = 26/64 (40%), Gaps = 10/64 (15%)
Query: 169 PEAVDKMVEDLEKQISKREKYSRRRTHNDDADIDYINERNMKFNKKLERFYGEHTAEIKQ 228
PE++ K E+ K++ + + S+ E K K LE + + ++++
Sbjct: 84 PESIRKWREEQRKRLQELDAASKVMEQ----------EWREKAKKDLEEWNQRQSEQVEK 133
Query: 229 NLER 232
N
Sbjct: 134 NKIN 137
>1dgs_A DNA ligase; AMP complex, NAD+-dependent; HET: DNA AMP; 2.90A
{Thermus filiformis} SCOP: a.60.2.2 b.40.4.6 d.142.2.2
PDB: 1v9p_A*
Length = 667
Score = 27.9 bits (63), Expect = 3.6
Identities = 10/43 (23%), Positives = 13/43 (30%), Gaps = 7/43 (16%)
Query: 25 HAERLKRLKEIHLKRNESRQL--NHQEVVE-----EDRRKQLP 60
E L LKE + + V E +R LP
Sbjct: 237 QYELLLWLKEKGFPVEHCYEKALGAEGVEEVYRRGLAQRHALP 279
>3jsl_A DNA ligase; NAD+-dependent, DNA damage, DNA repair, DNA
replication, magnesium, manganese, metal-binding, NAD,
zinc; HET: DNA; 1.80A {Staphylococcus aureus} PDB:
3jsn_A*
Length = 318
Score = 27.4 bits (62), Expect = 3.9
Identities = 11/45 (24%), Positives = 19/45 (42%), Gaps = 7/45 (15%)
Query: 23 EKHAERLKRLKEIHLKRNESRQL--NHQEVVE-----EDRRKQLP 60
+E L L ++ N++R N V+E +R+ LP
Sbjct: 230 RSQSEALDELDKLGFTTNKNRARVNNIDGVLEYIEKWTSQRESLP 274
>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 = 27.5 bits (60), Expect = 4.4
Identities = 18/102 (17%), Positives = 40/102 (39%), Gaps = 1/102 (0%)
Query: 5 LTKYTLDMEAEQKNLTFQEKHAERLKRLK-EIHLKRNESRQLNHQEVVEEDRRKQLPNNW 63
L ++D+++ + +R +L EI E+ + + +E++ R +L
Sbjct: 633 LVVSSVDVQSVEPVDQRTRDALQRSVQLAIEITTNSQEAAAKHEAQRLEQEARGRLERQK 692
Query: 64 EARKRKAEWILKDEEQRQKALEEGEDYERVKMLNMTVAEAEK 105
+ +AE K+ + + E K + AEA +
Sbjct: 693 ILDQSEAEKARKELLELEAMSMAVESTGNAKAEAESRAEAAR 734
>3r5y_A Putative uncharacterized protein; PA-824, nitroimidazoles, split
barrel-like fold, DUF385, DEA dependent nitroreductase,
unknown function; HET: F42; 1.80A {Nocardia farcinica}
Length = 147
Score = 26.5 bits (58), Expect = 5.1
Identities = 12/78 (15%), Positives = 24/78 (30%)
Query: 50 VVEEDRRKQLPNNWEARKRKAEWILKDEEQRQKALEEGEDYERVKMLNMTVAEAEKFNKK 109
VE D R + + W + L + + V + E ++ ++
Sbjct: 61 RVEHDGRYAVVASQGGAPTHPAWYFNLVADPRAQLRDKDAVLSVVARELAGPERAEWWER 120
Query: 110 KKNPDVGFSDYQQATARQ 127
+ +YQ T R
Sbjct: 121 AVRAYPTYQEYQDNTRRL 138
>1b04_A Protein (DNA ligase); DNA replication; 2.80A {Geobacillus
stearothermophilus} SCOP: d.142.2.2
Length = 318
Score = 27.1 bits (61), Expect = 5.6
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 7/43 (16%)
Query: 25 HAERLKRLKEIHLKRNESRQL--NHQEVVE-----EDRRKQLP 60
H+E L L+ + K N R+ N EV+ D+R QLP
Sbjct: 234 HSEALDYLQALGFKVNPERRRCANIDEVIAFVSEWHDKRPQLP 276
>1auk_A Arylsulfatase A; cerebroside-3-sulfate hydrolysis, lysosomal
enzyme, hydrolas; HET: NDG NAG; 2.10A {Homo sapiens}
SCOP: c.76.1.2 PDB: 1n2k_A* 1n2l_A* 1e1z_P* 1e2s_P*
1e3c_P* 1e33_P*
Length = 489
Score = 26.9 bits (60), Expect = 6.4
Identities = 8/30 (26%), Positives = 13/30 (43%), Gaps = 2/30 (6%)
Query: 14 AEQKNLTFQ--EKHAERLKRLKEIHLKRNE 41
E NL E L+ LK++ L + +
Sbjct: 418 GENYNLLGGVAGATPEVLQALKQLQLLKAQ 447
>3uq8_A DNA ligase; adenylated protein, ATP-grAsp, rossman fold,
adenylation; HET: DNA NAD AMP; 1.70A {Haemophilus
influenzae} PDB: 3pn1_A* 3bac_A*
Length = 322
Score = 26.7 bits (60), Expect = 6.6
Identities = 12/54 (22%), Positives = 21/54 (38%), Gaps = 7/54 (12%)
Query: 14 AEQKNLTFQEKHAERLKRLKEIHLKRNESRQL--NHQEVVE-----EDRRKQLP 60
+ + H RL+ LK I + N +L EV+ +++R L
Sbjct: 227 GIAEGVDLPTTHYARLQWLKSIGIPVNPEIRLCNGADEVLGFYRDIQNKRSSLG 280
>1ta8_A DNA ligase, NAD-dependent; nucleotidyl transferase fold; HET: DNA
NMN; 1.80A {Enterococcus faecalis} SCOP: d.142.2.2 PDB:
3ba8_A* 1tae_A* 3ba9_A* 3baa_A* 3bab_A*
Length = 332
Score = 26.7 bits (60), Expect = 6.6
Identities = 13/43 (30%), Positives = 18/43 (41%), Gaps = 7/43 (16%)
Query: 25 HAERLKRLKEIHLKRNESRQL--NHQEVVE-----EDRRKQLP 60
E L+ L I + N RQL + EV ++R LP
Sbjct: 240 QFEALEELSAIGFRTNPERQLCQSIDEVWAYIEEYHEKRSTLP 282
>3sgi_A DNA ligase; HET: DNA AMP; 3.50A {Mycobacterium tuberculosis}
Length = 615
Score = 26.8 bits (60), Expect = 6.7
Identities = 7/43 (16%), Positives = 14/43 (32%), Gaps = 7/43 (16%)
Query: 25 HAERLKRLKEIHLKRNESRQL--NHQEVVE-----EDRRKQLP 60
+ L+ L +E L + V E + R ++
Sbjct: 249 LHQAYLALRAWGLPVSEHTTLATDLAGVRERIDYWGEHRHEVD 291
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
0.311 0.128 0.351
Gapped
Lambda K H
0.267 0.0803 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,586,720
Number of extensions: 217692
Number of successful extensions: 688
Number of sequences better than 10.0: 1
Number of HSP's gapped: 653
Number of HSP's successfully gapped: 108
Length of query: 236
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 145
Effective length of database: 4,160,982
Effective search space: 603342390
Effective search space used: 603342390
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: 56 (25.2 bits)