RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 037974
(233 letters)
>3tqo_A Cysteinyl-tRNA synthetase; protein synthesis, ligase; 2.30A
{Coxiella burnetii}
Length = 462
Score = 109 bits (274), Expect = 5e-28
Identities = 43/166 (25%), Positives = 73/166 (43%), Gaps = 17/166 (10%)
Query: 42 LQDCEVALSPFQEDARSGSITPAAEDCIKKLRDEFYTRMSDDLNTSHILTGAFLDALKFI 101
L++ +AL F R + + D FY M DD NT F + ++ I
Sbjct: 312 LENGRLALERFYLALRG--LPVVNHEKTSSYTDRFYEAMDDDFNTPIAFALLF-EMVREI 368
Query: 102 NNSKKQPKQQQLSLIESLLKIENEVKVVLDVLGLLPEGSTYSEVLQQLKDKALKRAELAE 161
N + + ++ +++ + LK + ++ GLL + + LQ K E
Sbjct: 369 NRFRDNNQIEKAAVLAAELK------CLGNIFGLLQY--SPEQFLQGAKK------EADV 414
Query: 162 NDVLHLIEERATAKKNKDFSKSDQIRADLTRKGIALMDVRKETIWR 207
++ LI++R A+ KD+ +DQIR LT G+A+ D T WR
Sbjct: 415 QEIKKLIDQRNEARAKKDWKTADQIRDQLTDLGVAIEDSSDGTSWR 460
>1li5_A Cysrs, cysteinyl-tRNA synthetase, transfer RNA-Cys; cysteine,
E.coli, ligase; 2.30A {Escherichia coli} SCOP: a.27.1.1
c.26.1.1 PDB: 1li7_A 1u0b_B
Length = 461
Score = 105 bits (264), Expect = 1e-26
Identities = 38/166 (22%), Positives = 64/166 (38%), Gaps = 15/166 (9%)
Query: 42 LQDCEVALSPFQEDARSGSITPAAEDCIKKLRDEFYTRMSDDLNTSHILTGAFLDALKFI 101
L+ AL A G+ A + F M DD NT + F D + +
Sbjct: 309 LKQARAALERLYT-ALRGTDKTVAPAGGEAFEARFIEAMDDDFNTPEAYSVLF-DMAREV 366
Query: 102 NNSKKQPKQQQLSLIESLLKIENEVKVVLDVLGLLPEGSTYSEVLQQLKDKALKRAELAE 161
N K + + + + ++ + VLGLL + + + +
Sbjct: 367 NRLKAEDM-------AAANAMASHLRKLSAVLGLLEQEP------EAFLQSGAQADDSEV 413
Query: 162 NDVLHLIEERATAKKNKDFSKSDQIRADLTRKGIALMDVRKETIWR 207
++ LI++R A+K KD++ +D R L GI L D + T WR
Sbjct: 414 AEIEALIQQRLDARKAKDWAAADAARDRLNEMGIVLEDGPQGTTWR 459
>3sp1_A Cysteinyl-tRNA synthetase; structural genomics, seattle structural
genomics center for infectious disease, ssgcid, LYME
disease; HET: AMP; 2.55A {Borrelia burgdorferi}
Length = 501
Score = 102 bits (256), Expect = 2e-25
Identities = 33/167 (19%), Positives = 64/167 (38%), Gaps = 23/167 (13%)
Query: 41 TLQDCEVALSPFQEDARSGSITPAAEDCIKKLRDEFYTRMSDDLNTSHILTGAFLDALKF 100
L +L P + + + K+ D F ++S DLN + L + + +K
Sbjct: 356 KLSYFYESLDPVDLNTLNKDLKNFGFSVEKEYYDSFVEKISFDLNVAQGLALLW-EIIKS 414
Query: 101 INNSKKQPKQQQLSLIESLLKIENEVKVVLDVLGLLPEGSTYSEVLQQLKDKALKRAELA 160
N S + E ++ L + +++ +
Sbjct: 415 DNLSFVSKLRLAFIFDE--------------IMSL--------NLREEILKNLQNHDVVI 452
Query: 161 ENDVLHLIEERATAKKNKDFSKSDQIRADLTRKGIALMDVRKETIWR 207
+ ++ LIEER AK K+F ++D+IR +KG L+D ++ T +
Sbjct: 453 DENMKALIEERRIAKCEKNFKRADEIRDFFAKKGFVLVDTKEGTKVK 499
>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 = 2e-06
Identities = 24/204 (11%), Positives = 61/204 (29%), Gaps = 65/204 (31%)
Query: 11 PAFVRTLLLDIF--WLNELFASIPQYTGNETITLQDCEVALSPFQEDARSGSITPAAEDC 68
+ + +L+ +P+ + +P ++ AE
Sbjct: 296 MTLTPDEVKSLLLKYLDCRPQDLPR---------EVLTT--NPR-------RLSIIAE-- 335
Query: 69 IKKLRD-----EFYTRMSDDLNTSHILTGAFLDALKFINNSKKQPKQQQLSLIESLLKIE 123
+RD + + ++ D + I+ + L+ L+ P + + + + L
Sbjct: 336 --SIRDGLATWDNWKHVNCD-KLTTII-ESSLNVLE--------PAEYR-KMFDRLSVFP 382
Query: 124 NEVKVVLDVLGLLPEGSTYSEV---LQQLKDKAL------------------KRAELAEN 162
+ +L L+ S+V + +L +L + +L
Sbjct: 383 PSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENE 442
Query: 163 DVLH--LIEERATAKK--NKDFSK 182
LH +++ K + D
Sbjct: 443 YALHRSIVDHYNIPKTFDSDDLIP 466
Score = 38.7 bits (89), Expect = 0.001
Identities = 38/294 (12%), Positives = 93/294 (31%), Gaps = 85/294 (28%)
Query: 8 ILFPAFVRTLLLDIFWLNELFASIPQYTGNETITLQDCEVALSPFQEDARS----GSITP 63
+ AFV D + ++ SI ++ ++ + + + + ++
Sbjct: 24 VFEDAFVDNF--DCKDVQDMPKSI--------LSKEEIDHIIMSKDAVSGTLRLFWTLLS 73
Query: 64 AAEDCIKK-----LRDEF---YTRMSDDLNTSHILTGAFLDAL-KFINNSKKQPK----- 109
E+ ++K LR + + + + ++T +++ + N+++ K
Sbjct: 74 KQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSR 133
Query: 110 -QQQLSLIESLLKIENEVKVVLDVLGLLPEGSTYSEVLQQLKDKALKRA----------- 157
Q L L ++LL++ V++D G+L G T L ++
Sbjct: 134 LQPYLKLRQALLELRPAKNVLID--GVLGSGKT-WVALDVCLSYKVQCKMDFKIFWLNLK 190
Query: 158 ------ELAE--NDVLHLIEERATAKKNKDFSKSDQIRADLTRKGI-----------ALM 198
+ E +L+ I+ T+ D S + ++R + + L+
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTS--RSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL 248
Query: 199 ---DVRKETIWRP----C--------------VPVEQEQEAPLVEKEQQLGEEQ 231
+V+ W C + L L ++
Sbjct: 249 VLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDE 302
Score = 27.9 bits (61), Expect = 4.0
Identities = 21/145 (14%), Positives = 49/145 (33%), Gaps = 48/145 (33%)
Query: 9 LFPAFVRTLLLDIFWL-NELFASIPQYTGNETI--TLQDCEVALSPFQEDARSGSITPAA 65
F R + LD +L ++ + + +I TLQ + ++
Sbjct: 489 RMTLF-RMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDN---------- 537
Query: 66 EDCIKKLRDEFYTRMSDDLNTSHILTGAFLDALKFINNSKKQPKQQQLSLIESLLKIENE 125
D Y R+ + + L F+ + + +LI S K +
Sbjct: 538 --------DPKYERLVNAI-------------LDFL-------PKIEENLICS--KYTDL 567
Query: 126 VKVVLDVLGLLPEGSTYSEVLQQLK 150
+++ L + + + + E +Q++
Sbjct: 568 LRIAL----MAEDEAIFEEAHKQVQ 588
>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 = 7e-05
Identities = 33/195 (16%), Positives = 60/195 (30%), Gaps = 64/195 (32%)
Query: 8 ILFPAFVRTLLL--DIFWLNELFASIPQYTGNETITLQD--------CEVALSPFQ---- 53
+ F L DI + L A + Q + ++ +A PF
Sbjct: 86 LCLTEFENCYLEGNDI---HALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSN 142
Query: 54 ----EDARSGSITPAA--------EDCIKKLRD----------EFYTRMSDDLNT----- 86
G+ A +D ++LRD + ++ L+
Sbjct: 143 SALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTT 202
Query: 87 ----SHILTGAFLDALKFINNSKKQPKQQQLS-------LIESLLKIENEVKVVLDVLGL 135
G L+ L+++ N P + L LI ++++ + V V +LG
Sbjct: 203 LDAEKVFTQG--LNILEWLENPSNTPDKDYLLSIPISCPLI-GVIQLAHYV-VTAKLLGF 258
Query: 136 LPEGSTYSEVLQQLK 150
P E+ LK
Sbjct: 259 TPG-----ELRSYLK 268
Score = 41.6 bits (97), Expect = 1e-04
Identities = 29/165 (17%), Positives = 48/165 (29%), Gaps = 71/165 (43%)
Query: 47 VALSPFQEDARSGSIT----------PAAEDCIKKLRDEFYTRM--------SDDLNTSH 88
+ P GS+ A +L+++F + +DD T+
Sbjct: 4 YSTRPLT--LSHGSLEHVLLVPTASFFIAS----QLQEQFNKILPEPTEGFAADDEPTTP 57
Query: 89 I-LTGAFLDALKFINNSKKQPKQQQLSLIESLLKIENEVKVVLDVLGLLPEGSTYSEVLQ 147
L G FL ++ +S +P + + +VL
Sbjct: 58 AELVGKFLG---YV-SSLVEPSKV----------------------------GQFDQVLN 85
Query: 148 QLKDKALKRAE---LAENDVLH------LIEERATAKKNKDFSKS 183
L E L ND+ H L E T K K+ K+
Sbjct: 86 ----LCLTEFENCYLEGNDI-HALAAKLLQENDTTLVKTKELIKN 125
Score = 37.0 bits (85), Expect = 0.004
Identities = 41/305 (13%), Positives = 80/305 (26%), Gaps = 139/305 (45%)
Query: 19 LDIF-WLN--------ELFASIP------------QYTGNETITLQDCEVA-LSPFQEDA 56
L+I WL + SIP Y +T ++ +P + +
Sbjct: 213 LNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYV----VT---AKLLGFTPGELRS 265
Query: 57 RSGSITPAAEDCIKKL-------RDEFYTRMSDDLNTSHILTGAFLDALKFINNSKKQPK 109
T ++ + + + F+ + +T F ++
Sbjct: 266 YLKGATGHSQGLVTAVAIAETDSWESFFV------SVRKAITVLFFIGVRC--------- 310
Query: 110 QQ---QLSLIESLLK--IENEVKV---VLDVLGLLPEGSTYSEVLQQLKDKALKRAELAE 161
+ SL S+L+ +EN V +L + L E +Q +K + L
Sbjct: 311 YEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQE------QVQDYVNKT--NSHLPA 362
Query: 162 NDVLH--LIE---------------------ERATAKKNKD-----FSK----------- 182
+ L+ +A A D FS+
Sbjct: 363 GKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLP 422
Query: 183 -------------SDQIRADLTRKGIALMDVRKETIWRPC---VPVE--------QEQEA 218
SD I DL + ++ + +PV +
Sbjct: 423 VASPFHSHLLVPASDLINKDLVKNNVS---------FNAKDIQIPVYDTFDGSDLRVLSG 473
Query: 219 PLVEK 223
+ E+
Sbjct: 474 SISER 478
Score = 35.8 bits (82), Expect = 0.010
Identities = 23/92 (25%), Positives = 31/92 (33%), Gaps = 29/92 (31%)
Query: 8 ILFPAFVRTLLLDIFWLNELFAS----IPQY---TGNETITLQDCEVALSPFQEDAR--S 58
+L PA + D+ N F + IP Y G D R S
Sbjct: 431 LLVPA-SDLINKDLVKNNVSFNAKDIQIPVYDTFDG-----------------SDLRVLS 472
Query: 59 GSITPAAEDCIKKLRDEFYTRMSDDLNTSHIL 90
GSI+ DCI +R + +HIL
Sbjct: 473 GSISERIVDCI--IRLPVKWETTTQFKATHIL 502
Score = 33.9 bits (77), Expect = 0.049
Identities = 29/185 (15%), Positives = 54/185 (29%), Gaps = 78/185 (42%)
Query: 21 IFWLNELFA--SIPQYTGNETITLQDCEVALSPFQEDARSGSITPAAEDCIK--KLR--- 73
+ + FA S+ +Y AL+ + + ++ E ++ R
Sbjct: 1752 LIPADATFAGHSLGEYA------------ALA-----SLADVMSI--ESLVEVVFYRGMT 1792
Query: 74 -------DEF---YTRMSDDLNTSHILTGAFLDALKFI---------------N-NSKKQ 107
DE M +N + +AL+++ N N
Sbjct: 1793 MQVAVPRDELGRSNYGMIA-INPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNV--- 1848
Query: 108 PKQQQLSLIESLLKIENEVKVVL--DVLGLLPEGSTYSEVLQQLKDKALKRAELAENDVL 165
QQ V D+ L T + VL +K + + EL ++ L
Sbjct: 1849 ENQQ----------------YVAAGDLRAL----DTVTNVLNFIKLQKIDIIELQKSLSL 1888
Query: 166 HLIEE 170
+E
Sbjct: 1889 EEVEG 1893
>3c8z_A Cysteinyl-tRNA synthetase; cysteine ligase, rossmann fold, Cys-SA
inhibitor, zinc binding, ATP-binding, aminoacyl-tRNA
synthetase; HET: 5CA 1PE EPE; 1.60A {Mycobacterium
smegmatis}
Length = 414
Score = 31.8 bits (73), Expect = 0.14
Identities = 10/85 (11%), Positives = 27/85 (31%), Gaps = 9/85 (10%)
Query: 42 LQDCEVALSPFQEDARSGSITPAAEDCIKKLRDEFYTRMSDDLNTSHILTGAFLDALKFI 101
L + L+ ++ A + + ++DDL+T L
Sbjct: 335 LDEANARLARWRSATALPEAPDATD-----VIARVRQYLADDLDTPKALAALD-GWCTDA 388
Query: 102 N---NSKKQPKQQQLSLIESLLKIE 123
+ + + +++LL ++
Sbjct: 389 LSYGGHDTESPRLVATTVDALLGVD 413
>2r1f_A Protein YCEG, predicted aminodeoxychorismate lyase; structural
genomics, unknown function, PFAM 02618, PSI-2, PR
structure initiative; 2.21A {Escherichia coli}
Length = 270
Score = 31.8 bits (73), Expect = 0.15
Identities = 17/112 (15%), Positives = 41/112 (36%), Gaps = 18/112 (16%)
Query: 136 LPEGSTYSEVLQQLKDKALKRAELAENDVLHLIEERATAKKNK----------DFSKSDQ 185
L EG S+ L+QL++ + L+++ + + ++ +
Sbjct: 44 LVEGMRLSDYLKQLREAPYIKHTLSDDKYATVAQALELENPEWIEGWFWPDTWMYTANTT 103
Query: 186 IRADLTRKGIALMDVRKETIWR---PCVPVEQEQE----APLVEKEQQLGEE 230
L ++ M ++ W +P + + + A ++EKE + E
Sbjct: 104 -DVALLKRAHKKMVKAVDSAWEGRADGLPYKDKNQLVTMASIIEKETAVASE 154
>1fjj_A Hypothetical 17.1 kDa protein in MODC-BIOA intergenic region; PEPB
family, lipid binding protein; HET: MSE EPE; 1.66A
{Escherichia coli} SCOP: b.17.1.2 PDB: 1vi3_A*
Length = 159
Score = 29.1 bits (65), Expect = 0.81
Identities = 7/31 (22%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 130 LDVLGL-LPEGSTYSEVLQQLKDKALKRAEL 159
LD+ + + EG++ + V + +L A +
Sbjct: 124 LDIERIDVDEGASGAMVGFNVHFHSLASASI 154
>2evv_A Hypothetical protein HP0218; alpha-beta structure, dimer,
structural genomics, PSI, prote structure initiative;
HET: MSE; 2.59A {Helicobacter pylori}
Length = 207
Score = 29.2 bits (65), Expect = 0.82
Identities = 4/31 (12%), Positives = 12/31 (38%), Gaps = 1/31 (3%)
Query: 130 LDVLGL-LPEGSTYSEVLQQLKDKALKRAEL 159
LD+ L L ++ ++++ +
Sbjct: 165 LDIPKLALKAPFFLGDLHDKMRNHIIAIGRK 195
>1fux_A Hypothetical 19.5 kDa protein in EMRE-RUS intergenic region; beta
protein, unknown function; 1.81A {Escherichia coli}
SCOP: b.17.1.2
Length = 166
Score = 28.6 bits (64), Expect = 1.0
Identities = 6/31 (19%), Positives = 12/31 (38%), Gaps = 1/31 (3%)
Query: 130 LDVLGL-LPEGSTYSEVLQQLKDKALKRAEL 159
L + + S+ + V L + AE+
Sbjct: 127 LKTEKIPVDSNSSGALVGYMLNANKIATAEI 157
>3t7v_A Methylornithine synthase PYLB; TIM-barrel fold, mutase,
[4Fe-4S]-cluster, SAM, lysine, transferase; HET: SAM
MD0; 1.50A {Methanosarcina barkeri}
Length = 350
Score = 28.8 bits (65), Expect = 1.4
Identities = 9/44 (20%), Positives = 22/44 (50%)
Query: 144 EVLQQLKDKALKRAELAENDVLHLIEERATAKKNKDFSKSDQIR 187
+ L DK ++ +L +ND+ L+ + + +S + ++R
Sbjct: 8 DEFDSLGDKVIEGYQLTDNDLRTLLSLESKEGLERLYSAARKVR 51
>3n08_A Putative phosphatidylethanolamine-binding protein; eukarytic
homolog RAF kinase inhibitor protein (RKIP). csgid
structural genomics; 1.25A {Chlamydia trachomatis}
Length = 153
Score = 27.7 bits (62), Expect = 2.1
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 130 LDVLGLLPEGSTYSEVLQQLKDKALKRAEL 159
LDV+ EG T ++L+ + + AEL
Sbjct: 117 LDVVLSDEEGVTKEQLLEAMDGHIIATAEL 146
>1xgw_A Epsin 4; ENTH, enthoprotin, clathrin-associated, endocytosis; 1.90A
{Homo sapiens} PDB: 2qy7_A 2v8s_E
Length = 176
Score = 27.7 bits (61), Expect = 2.2
Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 12/92 (13%)
Query: 99 KFINNSKKQPKQ--QQLSLIESLLK-----IENEVKVVLDVLGLLPE----GSTYSEVLQ 147
+ + ++KK ++ + L L+ L++ + + + L L +
Sbjct: 78 RMLKDNKKNWRRVYKSLLLLAYLIRNGSERVVTSAREHIYDLRSLENYHFVDEHGKDQGI 137
Query: 148 QLKDKALKRAELAENDVLHLIEERATAKKNKD 179
++ K + E A++D L EER AKKNKD
Sbjct: 138 NIRQKVKELVEFAQDDDR-LREERKKAKKNKD 168
>2qrw_A Hemoglobin-like protein HBO; truncated hemoglobin fold, alpha
helix, heme, hydroxylation, iron, membrane,
metal-binding; HET: HEM; 1.93A {Mycobacterium
tuberculosis} PDB: 1ngk_A*
Length = 128
Score = 25.6 bits (56), Expect = 8.4
Identities = 4/34 (11%), Positives = 11/34 (32%)
Query: 66 EDCIKKLRDEFYTRMSDDLNTSHILTGAFLDALK 99
+ FY ++++D + L +
Sbjct: 12 AKTFDAIVSRFYAQVAEDEVLRRVYPEDDLAGAE 45
>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 = 26.1 bits (56), Expect = 9.1
Identities = 4/14 (28%), Positives = 10/14 (71%)
Query: 109 KQQQLSLIESLLKI 122
++Q L +++ LK+
Sbjct: 18 EKQALKKLQASLKL 31
>3jsb_A Protein L, RNA-directed RNA polymerase; viral protein, vizier,
structural genomics, marseilles struc genomics program @
AFMB; 2.13A {Lymphocytic choriomeningitis virus}
Length = 204
Score = 26.0 bits (57), Expect = 9.6
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 175 KKNKDFSKSDQIRADLTRKGIALMDV 200
K +D +K IR DL G+ L+ +
Sbjct: 122 KFIEDTNKLACIREDLAVAGVTLVPI 147
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 0.368
Gapped
Lambda K H
0.267 0.0462 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,366,259
Number of extensions: 193954
Number of successful extensions: 417
Number of sequences better than 10.0: 1
Number of HSP's gapped: 408
Number of HSP's successfully gapped: 31
Length of query: 233
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 143
Effective length of database: 4,188,903
Effective search space: 599013129
Effective search space used: 599013129
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 (26.0 bits)