RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10593
(275 letters)
>2dgy_A MGC11102 protein; EIF-1A, structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 111
Score = 89.6 bits (222), Expect = 6e-23
Identities = 47/116 (40%), Positives = 67/116 (57%), Gaps = 8/116 (6%)
Query: 13 ELLSQEYRVPEDLNNIVKITQNSGNNLHQIENHSGEKYFVSMPGKFRNNIWIKPGDFVIV 72
S E+ VP + IV++ + GNNLH++E G+++ VSMP K+R NIWIK GDF+IV
Sbjct: 3 SGSSGEHIVPSNQQQIVRVLRTPGNNLHEVETAQGQRFLVSMPSKYRKNIWIKRGDFLIV 62
Query: 73 KPIEEGNKVKAEIEQILDKKYISFLKQQLKLPPIENGDIVHHFQEIGEQQAKPYRD 128
PIEEG KVKAEI +L K ++ L+++ P F E+ E+
Sbjct: 63 DPIEEGEKVKAEISFVLCKDHVRSLQKEGFWPE--------AFSEVAEKHNSGPSS 110
Score = 33.0 bits (75), Expect = 0.027
Identities = 16/39 (41%), Positives = 25/39 (64%), Gaps = 2/39 (5%)
Query: 137 EEGNKVKAEIEQILDKKYISFLKQQNSWP--FTEDSAED 173
EEG KVKAEI +L K ++ L+++ WP F+E + +
Sbjct: 66 EEGEKVKAEISFVLCKDHVRSLQKEGFWPEAFSEVAEKH 104
>1jt8_A EIF-1A, probable translation initiation factor 1A; beta barrel,
translation factor; NMR {Methanocaldococcus jannaschii}
SCOP: b.40.4.5
Length = 102
Score = 62.7 bits (152), Expect = 5e-13
Identities = 25/106 (23%), Positives = 49/106 (46%), Gaps = 5/106 (4%)
Query: 1 MSKATKRKHVQKELLSQEYRVPEDLNNIVKITQNSGNNLHQIENHSGEKYFVSMPGKFRN 60
M++ + + ++ + E+ + I Q G + ++ G+ +PG+ +N
Sbjct: 1 MAEQQQEQQIRVRI-----PRKEENEILGIIEQMLGASRVRVRCLDGKTRLGRIPGRLKN 55
Query: 61 NIWIKPGDFVIVKPIEEGNKVKAEIEQILDKKYISFLKQQLKLPPI 106
IW++ GD VIVKP E K +I K + +LK++ L +
Sbjct: 56 RIWVREGDVVIVKPWEVQGDQKCDIIWRYTKTQVEWLKRKGYLDEL 101
>1d7q_A Translation initiation factor 1A; OB-fold, beta-barrel, RNA-binding
protein, gene regulation; NMR {Homo sapiens} SCOP:
b.40.4.5
Length = 143
Score = 61.2 bits (148), Expect = 6e-12
Identities = 24/119 (20%), Positives = 43/119 (36%), Gaps = 1/119 (0%)
Query: 2 SKATKRKHVQKELLSQEYRVPEDLNNIVKITQNSGNNLHQIENHSGEKYFVSMPGKFRNN 61
K +R + E +E ED ++ + GN + G K + GK R
Sbjct: 8 GKNRRRGKNENESEKRELVFKEDGQEYAQVIKMLGNGRLEAMCFDGVKRLCHIRGKLRKK 67
Query: 62 IWIKPGDFVIVKPIEEGNKVKAEIEQILDKKYISFLKQQLKLPPIENGDIVHHFQEIGE 120
+WI D ++V + + KA++ + LK +LP + F +
Sbjct: 68 VWINTSDIILVGLRDYQDN-KADVILKYNADEARSLKAYGELPEHAKINETDTFGPGDD 125
>2oqk_A Putative translation initiation factor EIF-1A; malaria, eukaryotic
initiation facto SGC, structural genomics; 1.80A
{Cryptosporidium parvum iowa II}
Length = 117
Score = 55.0 bits (132), Expect = 6e-10
Identities = 23/105 (21%), Positives = 40/105 (38%), Gaps = 1/105 (0%)
Query: 2 SKATKRKHVQKELLSQEYRVPEDLNNIVKITQNSGNNLHQIENHSGEKYFVSMPGKFRNN 61
K +R E +E E+ ++ + GN G+K + GK R
Sbjct: 9 GKNRRRGKNDSEGDKRELVFKEEGQEYGQVQRMLGNGRLDAYCFDGQKRLCHIRGKMRKK 68
Query: 62 IWIKPGDFVIVKPIEEGNKVKAEIEQILDKKYISFLKQQLKLPPI 106
+W+ PGD V+V + + K +I LK + ++P
Sbjct: 69 VWVNPGDIVLVSLRDFQDS-KGDIILKYTPDEARALKSKGEIPET 112
>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 = 46.4 bits (109), Expect = 7e-06
Identities = 47/298 (15%), Positives = 99/298 (33%), Gaps = 85/298 (28%)
Query: 8 KHVQ---KELLSQEYRVPEDLNNIVKITQNSGNNLHQIENHSGEKYFVSMPGKFRNNIWI 64
K VQ K +LS+E ++++I+ S + + + W
Sbjct: 36 KDVQDMPKSILSKE-----EIDHII----MSKDAVSGT-------LRL---------FWT 70
Query: 65 KPGDFVIVKPIEEGNKVKAEIEQILDKKYISFLKQQLKLPPIENGDIVHHFQEIGEQQAK 124
++ K V+ +E++L Y FL +K + + + E Q+ +
Sbjct: 71 -----LLSKQ---EEMVQKFVEEVLRINY-KFLMSPIKTEQRQPSMMTRMYIE---QRDR 118
Query: 125 PYRDLTL----HLLNKEEGNKVKAEIEQILDKKYIS------FLKQQNSWPFTEDSAEDK 174
Y D + ++ + K++ + ++ K + K +W D
Sbjct: 119 LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGK---TW-VALDVCLSY 174
Query: 175 ---------------AKSNCEDSDDEMLNGNLNRRNNVM-TEFSNRTKSGQFSTVIWYWY 218
N ++ EML L + + T S+ + + +
Sbjct: 175 KVQCKMDFKIFWLNLKNCNSPETVLEMLQ-KLLYQIDPNWTSRSDHSSNIKLRIHSIQAE 233
Query: 219 LR-YIKHRCNKKFL----------ELEIFYGHPKCEVEVITKSHQFITDDRTASTRVH 265
LR +K + + L F + C++ + T+ Q +TD +A+T H
Sbjct: 234 LRRLLKSKPYENCLLVLLNVQNAKAWNAF--NLSCKILLTTRFKQ-VTDFLSAATTTH 288
Score = 39.5 bits (91), Expect = 0.001
Identities = 28/218 (12%), Positives = 63/218 (28%), Gaps = 75/218 (34%)
Query: 24 DLNNIVKITQNSGNNLHQIENHSGEKYFVSMPGKFRNNIWIKPGDFVIVKPIEEGNKVKA 83
+ + + I ++S N L E K F + F + I ++ + +K+
Sbjct: 351 NCDKLTTIIESSLNVLEPAEY---RKMFDRL-SVFPPSAHIPTILLSLI----WFDVIKS 402
Query: 84 EIEQILDKKYISFLKQQLKLPPIENGDIVHHFQEIGEQQAKPYRDLTLHLLNKEEGNKVK 143
++ +++K K L E+Q K +++ + E KVK
Sbjct: 403 DVMVVVNK----LHKYSLV-----------------EKQPKEST-ISIPSIYLEL--KVK 438
Query: 144 AEIEQILDKKYISFLKQQNSWPFTEDSAEDKAKSNCEDSDDEMLNGNLNRRNNVMTEFSN 203
E E L + + ++ +D D
Sbjct: 439 LENEYALHRSIVDHYNIPKTFDS-----DDLIP-PYLDQ--------------------- 471
Query: 204 RTKSGQFSTVIWYWYLRYIKHRCN----KKFLELEIFY 237
+Y ++ + H N ++ + +
Sbjct: 472 ----------YFYSHIGH--HLKNIEHPERMTLFRMVF 497
Score = 39.1 bits (90), Expect = 0.001
Identities = 29/173 (16%), Positives = 63/173 (36%), Gaps = 30/173 (17%)
Query: 98 KQQLKLPPIENGDIVHHFQE--IGEQQAKPYRDLTLHLLNKEEGNKVKAEIEQILDKKYI 155
+ Q + DI+ F++ + K +D+ +L+KE EI+ I+ K
Sbjct: 13 EHQYQ-----YKDILSVFEDAFVDNFDCKDVQDMPKSILSKE-------EIDHIIMSKDA 60
Query: 156 SFLKQQNSWPFTEDSAEDKAKSNCEDSDDEMLNGNLNRRNNVMTEFSNRTKSGQFSTVIW 215
F + K + + +E+L N +M+ + T
Sbjct: 61 ---VSGTLRLF--WTLLSKQEEMVQKFVEEVLRINYKF---LMSPIKTEQRQPSMMTR-- 110
Query: 216 YWYLRYIKHRCNKKFLELEIFYGHPKCEVEVITKSHQFITDDRTAS-TRVHGL 267
YI+ R ++ + + ++F + ++ K Q + + R A + G+
Sbjct: 111 ----MYIEQR-DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGV 158
>3ikm_A DNA polymerase subunit gamma-1; human mitochondrial DNA polymerase,
disease mutation, DNA replication, DNA-binding,
DNA-directed DNA polymerase; HET: DNA; 3.24A {Homo
sapiens}
Length = 1172
Score = 43.0 bits (100), Expect = 9e-05
Identities = 11/38 (28%), Positives = 23/38 (60%)
Query: 100 QLKLPPIENGDIVHHFQEIGEQQAKPYRDLTLHLLNKE 137
+L+LPP+ ++ HF+ + ++Q+ PY + LL +
Sbjct: 55 ELRLPPLYGDNLDQHFRLLAQKQSLPYLEAANLLLQAQ 92
>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein;
HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A*
1e32_A* 1s3s_A* 2pjh_B
Length = 489
Score = 35.2 bits (81), Expect = 0.021
Identities = 17/76 (22%), Positives = 31/76 (40%), Gaps = 10/76 (13%)
Query: 48 EKYFVSMPGKFRNNIWIKPGDFVIVKP---IEEGNKVKA-----EIEQILDKKYISFLKQ 99
+ M RNN+ ++ GD + ++P ++ G ++ +E I + +LK
Sbjct: 78 SDEKIRMNRVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPIDDTVEGITGNLFEVYLKP 137
Query: 100 QLKLP--PIENGDIVH 113
PI GDI
Sbjct: 138 YFLEAYRPIRKGDIFL 153
>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 = 33.5 bits (76), Expect = 0.085
Identities = 29/180 (16%), Positives = 52/180 (28%), Gaps = 75/180 (41%)
Query: 6 KRKHVQKEL------LSQEYRV----------------PEDL----NNIVKITQNSGNNL 39
++ VQ + L +V P+ L + K SG +
Sbjct: 345 TQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQ 404
Query: 40 HQIENHSGEKYFVSMPGKFRNNIWIKPGDFVIVKPI---------EEGNKVKAEIEQILD 90
+I S K KF N F+ P+ I + L
Sbjct: 405 SRIP-FSERK-----L-KFSNR-------FL---PVASPFHSHLLVP---ASDLINKDLV 444
Query: 91 KKYISFLKQQLKLPPIENGDIVHHFQEIGEQQAKPYRDLTLHLLNKEEGNKVKAEIEQIL 150
K +SF + +++P V+ + G DL G+ + ++ I+
Sbjct: 445 KNNVSFNAKDIQIP-------VYDTFD-GS-------DLR-----VLSGSISERIVDCII 484
Score = 29.2 bits (65), Expect = 1.7
Identities = 16/107 (14%), Positives = 38/107 (35%), Gaps = 44/107 (41%)
Query: 23 EDLNNIV-KITQNSGNNLHQIENH--SGEKYFVSMPGKFRNNIWIKPGDFVIVKPIEEGN 79
E L +V ++ + +G + +I N+ ++Y + GD ++ ++
Sbjct: 1824 EALQYVVERVGKRTGWLV-EIVNYNVENQQYVAA-------------GD---LRALD--- 1863
Query: 80 KVKAEIEQILDKKYISFLKQQLKLPPIENGDIVH-----HFQEIGEQ 121
+ +L+ +KL I DI+ +E+
Sbjct: 1864 ----TVTNVLNF---------IKLQKI---DIIELQKSLSLEEVEGH 1894
Score = 28.1 bits (62), Expect = 4.5
Identities = 25/131 (19%), Positives = 46/131 (35%), Gaps = 39/131 (29%)
Query: 16 SQE-------YRVPEDLNNIVKITQNSGNNLHQIENHSGEKYFVSMPGKFRNNIWIKPGD 68
SQE Y+ + ++ ++ +NH + Y S+ NN P +
Sbjct: 1626 SQEQGMGMDLYKTSKAAQDV----------WNRADNHFKDTYGFSILDIVINN----PVN 1671
Query: 69 FVIVKPIEEGNKVKAEIEQILDKKYISFLKQQLKLPPIENGDIVHHFQEIGEQQAKPYRD 128
I E+G +++ E + + + +LK I F+EI E
Sbjct: 1672 LTIHFGGEKGKRIR---ENYSAMIFETIVDGKLKTEKI--------FKEINE-------H 1713
Query: 129 LTLHLLNKEEG 139
T + E+G
Sbjct: 1714 STSYTFRSEKG 1724
>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; HET: GDP; 1.90A
{Aquifex aeolicus}
Length = 302
Score = 32.5 bits (75), Expect = 0.12
Identities = 11/63 (17%), Positives = 22/63 (34%), Gaps = 3/63 (4%)
Query: 30 KITQNSGNNLHQIENHSGEKYFVSMPGKFRNNIWIKPGDFVIVKPIEEGNKVKAEIEQIL 89
+ + G+ Y GK I GD+V + ++ IE++
Sbjct: 10 LVVDREAQMIGVYLFEDGKTYRGIPRGKVLKKTKIYAGDYVWGEVVDPNTFA---IEEVE 66
Query: 90 DKK 92
++K
Sbjct: 67 ERK 69
>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with
oligonucleotide binding fold, central GTP binding
domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5
c.37.1.8
Length = 307
Score = 31.0 bits (71), Expect = 0.39
Identities = 11/53 (20%), Positives = 20/53 (37%), Gaps = 6/53 (11%)
Query: 42 IENHSGEKYFVSMPGKFRNNIWIKP--GDFVIVKPIEEGNKVKAEIEQILDKK 92
S + G FR N I P GD+V+ + + + +I ++
Sbjct: 28 ESEDSDKVIQCRGRGIFRKNK-ITPLVGDYVVYQAENDKEGY---LMEIKERT 76
>3tiw_A Transitional endoplasmic reticulum ATPase; beta-barrel alpha-helix,
transport protein ATPase ubiquitin ubiquitin,
phosphorylation; 1.80A {Homo sapiens} PDB: 3qq8_A 3qq7_A
3qc8_A
Length = 187
Score = 30.4 bits (68), Expect = 0.45
Identities = 16/75 (21%), Positives = 28/75 (37%), Gaps = 10/75 (13%)
Query: 48 EKYFVSMPGKFRNNIWIKPGDFVIVKPIEEGNK--------VKAEIEQILDKKYISFLKQ 99
+ M RNN+ ++ GD + ++P + + +E I + +LK
Sbjct: 78 SDEKIRMNRVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPIDDTVEGITGNLFEVYLKP 137
Query: 100 QLKLP--PIENGDIV 112
PI GDI
Sbjct: 138 YFLEAYRPIRKGDIF 152
>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger,
structural genomics, BSGC structure funded by NIH,
protein structure initiative, PSI; HET: GDP; 2.80A
{Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8
Length = 301
Score = 29.8 bits (68), Expect = 0.95
Identities = 19/49 (38%), Positives = 26/49 (53%), Gaps = 4/49 (8%)
Query: 45 HSGEKYFVSMPGKFRN-NIWIKPGDFVIVKPIEEGNKVKAEIEQILDKK 92
+GE+ + GKFR N+ I GD V P E G+ V IE +L +K
Sbjct: 29 ETGERILCKLRGKFRLQNLKIYVGDRVEYTPDETGSGV---IENVLHRK 74
>1ypw_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD,
CDC48; HET: ADP ANP; 3.50A {Mus musculus} PDB: 1oz4_A*
1yq0_A* 1yqi_A* 1r7r_A* 3cf2_A* 3cf1_A* 3cf3_A*
Length = 806
Score = 29.8 bits (67), Expect = 1.0
Identities = 17/76 (22%), Positives = 28/76 (36%), Gaps = 10/76 (13%)
Query: 48 EKYFVSMPGKFRNNIWIKPGDFVIVKPIEEGNKVKA--------EIEQILDKKYISFLKQ 99
+ M RNN+ ++ GD + ++P + K +E I + +LK
Sbjct: 78 SDEKIRMNRVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPIDDTVEGITGNLFEVYLKP 137
Query: 100 QLKLP--PIENGDIVH 113
PI GDI
Sbjct: 138 YFLEAYRPIRKGDIFL 153
>3f02_A Neuroserpin; cleaved form, fenib, human, disease MUT glycoprotein,
protease inhibitor, secreted, serine protease inhibitor,
hydrolase inhibitor; 1.80A {Homo sapiens} PDB: 3fgq_A
1jjo_C 1jjo_A
Length = 359
Score = 28.8 bits (65), Expect = 1.7
Identities = 9/61 (14%), Positives = 22/61 (36%), Gaps = 3/61 (4%)
Query: 97 LKQQLKLPPIENGDIVHHFQEIGEQQAKPYRDLTLHLLNK---EEGNKVKAEIEQILDKK 153
++ + ++NG+ +E + + N + G V E Q++ K
Sbjct: 69 IRHSMGYDSLKNGEEFSFLKEFSNMVTAKESQYVMKIANSLFVQNGFHVNEEFLQMMKKY 128
Query: 154 Y 154
+
Sbjct: 129 F 129
>1cz4_A VCP-like ATPase; double-PSI beta-barrel, beta-CLAM, substrate
recognition DOM hydrolase; NMR {Thermoplasma
acidophilum} SCOP: b.52.2.3 d.31.1.1 PDB: 1cz5_A
Length = 185
Score = 28.3 bits (63), Expect = 1.9
Identities = 14/73 (19%), Positives = 26/73 (35%), Gaps = 8/73 (10%)
Query: 48 EKYFVSMPGKFRNNIWIKPGDFVIVKPIE--EGNKV------KAEIEQILDKKYISFLKQ 99
K V + RNN GD V V+ + KV + + + ++++
Sbjct: 63 NKGIVRIDSVMRNNCGASIGDKVKVRKVRTEIAKKVTLAPIIRKDQRLKFGEGIEEYVQR 122
Query: 100 QLKLPPIENGDIV 112
L P+ D +
Sbjct: 123 ALIRRPMLEQDNI 135
>1kca_A Repressor protein CI; gene regulation, DNA-binding, lambda
repressor, protein oligomerization, DNA-looping; 2.91A
{Enterobacteria phage lambda} SCOP: b.87.1.1
Length = 109
Score = 27.7 bits (62), Expect = 2.0
Identities = 9/52 (17%), Positives = 19/52 (36%), Gaps = 8/52 (15%)
Query: 43 ENHSGEKYFV-----SMPGKFRNNIWIKPGDFVIVKP---IEEGNKVKAEIE 86
+ S +++ SM + G ++V P +E G+ A +
Sbjct: 7 KKASDSAFWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAVEPGDFCIARLG 58
>3qwz_A Transitional endoplasmic reticulum ATPase; UBX, P97 binding,
transport protein; HET: MLY; 2.00A {Homo sapiens} PDB:
2pjh_B
Length = 211
Score = 28.5 bits (63), Expect = 2.1
Identities = 17/72 (23%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 52 VSMPGKFRNNIWIKPGDFVIVKP---IEEGNKV-----KAEIEQILDKKYISFLKQQLKL 103
+ M RNN+ ++ GD + ++P ++ G ++ +E I + +LK
Sbjct: 85 IRMNRVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPIDDTVEGITGNLFEVYLKPYFLE 144
Query: 104 P--PIENGDIVH 113
PI GDI
Sbjct: 145 AYRPIRKGDIFL 156
>3f5n_A Neuroserpin; cleaved form, fenib, human, tissue PLAS activator,
hydrolase inhibitor; 3.15A {Homo sapiens}
Length = 407
Score = 28.8 bits (65), Expect = 2.2
Identities = 9/61 (14%), Positives = 22/61 (36%), Gaps = 3/61 (4%)
Query: 97 LKQQLKLPPIENGDIVHHFQEIGEQQAKPYRDLTLHLLNK---EEGNKVKAEIEQILDKK 153
++ + ++NG+ +E + + N + G V E Q++ K
Sbjct: 69 IRHSMGYDSLKNGEEFSFLKEFSNMVTAKESQYVMKIANSLFVQNGFHVNEEFLQMMKKY 128
Query: 154 Y 154
+
Sbjct: 129 F 129
>3mml_B Allophanate hydrolase subunit 1; structural genomics, PSI-2,
protein structure initiative, tuberculosis structural
genomics consortium; 2.50A {Mycobacterium smegmatis}
Length = 228
Score = 28.1 bits (63), Expect = 2.4
Identities = 8/34 (23%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 23 EDLNNIVKITQNSGNNLHQIENHSGEKYFVSMPG 56
DL+ + +T + + I H+G + V G
Sbjct: 114 ADLHEVASLTGMTPAQV--IAAHTGTPWRVGFCG 145
>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport;
HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB:
1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*
Length = 207
Score = 27.6 bits (62), Expect = 3.4
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 139 GNKVKAEIEQILDKKYISFLKQQNSWPFTEDSAEDKAKSNCED 181
GNK+ E Q+ K+ ++ +N+ P+ E SA K N E
Sbjct: 124 GNKIDLENRQVATKRAQAWCYSKNNIPYFETSA--KEAINVEQ 164
>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase
domains, sensor 1, sensor 2, transferase; HET: DNA;
2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*
Length = 250
Score = 27.9 bits (63), Expect = 3.5
Identities = 8/36 (22%), Positives = 14/36 (38%)
Query: 99 QQLKLPPIENGDIVHHFQEIGEQQAKPYRDLTLHLL 134
Q L ++ I H + I ++ + L LL
Sbjct: 178 LQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLL 213
>2zjr_O 50S ribosomal protein L21; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.155.1.1 PDB: 1nwx_P* 1nwy_P*
1pnu_P 1pny_P 1sm1_P* 1vor_S 1vou_S 1vow_S 1voy_S
1vp0_S 1xbp_P* 1yl3_2 2b66_V 2b9n_V 2b9p_V 2zjp_O*
2zjq_O 1nkw_P 3cf5_O* 3dll_O* ...
Length = 100
Score = 26.7 bits (60), Expect = 3.8
Identities = 7/31 (22%), Positives = 11/31 (35%), Gaps = 1/31 (3%)
Query: 67 GDFVIVKPIEEGNKVKAEI-EQILDKKYISF 96
G+ + V+AE+ E KK
Sbjct: 42 GEQTVFGEDAGKYTVQAEVVEHGRGKKIYIR 72
>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 = 27.2 bits (59), Expect = 4.0
Identities = 9/36 (25%), Positives = 13/36 (36%), Gaps = 18/36 (50%)
Query: 84 EIEQILDKKYISFLKQQLKL--P---P-------IE 107
E + + KK L+ LKL P +E
Sbjct: 18 EKQAL--KK----LQASLKLYADDSAPALAIKATME 47
>2jmz_A Hypothetical protein MJ0781; unknown function; NMR
{Methanocaldococcus jannaschii} PDB: 2jnq_A
Length = 186
Score = 27.0 bits (59), Expect = 4.9
Identities = 12/69 (17%), Positives = 27/69 (39%), Gaps = 5/69 (7%)
Query: 26 NNIVKITQNSGNNLHQIENHSGEKYFVSMPGKFR--NNIWIKPGDFVIVKPIEEGNKVKA 83
++KIT + + +H ++S G+ N +K GD++ + N +
Sbjct: 84 GKLIKITTKNRREITLTHDHP---VYISKTGEVLEINAEMVKVGDYIYIPKNNTINLDEV 140
Query: 84 EIEQILDKK 92
+ +D
Sbjct: 141 IKVETVDYN 149
>3i4o_A Translation initiation factor IF-1; cytoplasm, protein
biosynthesis; 1.47A {Mycobacterium tuberculosis}
Length = 79
Score = 25.7 bits (57), Expect = 5.4
Identities = 12/37 (32%), Positives = 17/37 (45%), Gaps = 9/37 (24%)
Query: 37 NNLHQIENHSGEKYFVSMPGKFR-NNIWIKPGDFVIV 72
N H++ H + GK R + I I P D V+V
Sbjct: 34 ENGHKVLAH--------ISGKMRQHYIRILPEDRVVV 62
>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp,
clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A
{Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B*
3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*
Length = 373
Score = 27.2 bits (61), Expect = 6.5
Identities = 8/36 (22%), Positives = 14/36 (38%)
Query: 99 QQLKLPPIENGDIVHHFQEIGEQQAKPYRDLTLHLL 134
Q L ++ I H + I ++ + L LL
Sbjct: 171 LQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLL 206
>1ah9_A IF1, initiation factor 1; ribosome binding, protein-RNA
interaction, OB fold; NMR {Escherichia coli} SCOP:
b.40.4.5
Length = 71
Score = 24.9 bits (55), Expect = 8.6
Identities = 14/37 (37%), Positives = 16/37 (43%), Gaps = 9/37 (24%)
Query: 37 NNLHQIENHSGEKYFVSMPGKFR-NNIWIKPGDFVIV 72
N H + H +S GK R N I I GD V V
Sbjct: 26 ENGHVVTAH------IS--GKMRKNYIRILTGDKVTV 54
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
0.316 0.133 0.390
Gapped
Lambda K H
0.267 0.0505 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,140,136
Number of extensions: 239880
Number of successful extensions: 726
Number of sequences better than 10.0: 1
Number of HSP's gapped: 720
Number of HSP's successfully gapped: 63
Length of query: 275
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 183
Effective length of database: 4,133,061
Effective search space: 756350163
Effective search space used: 756350163
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: 56 (25.9 bits)