RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 021869
(306 letters)
>3bbn_E Ribosomal protein S5; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 308
Score = 329 bits (845), Expect = e-113
Identities = 199/306 (65%), Positives = 239/306 (78%), Gaps = 9/306 (2%)
Query: 2 ATTASATRATLSSLSSLSLSLSLHSTPRLSFLSTAKLTRLPKLTLSTVLVRASESDKPNG 61
AT+ + + + + LSL S+ + FLS L+ ++ + D
Sbjct: 11 ATSLTTLHRRIPLFPTTTTLLSLSSSSKPLFLS---LSSTRSFPTHLYCIKKDDID---- 63
Query: 62 IVFDDFNNPDEDAAVFDPPTPPEDYTPPPSFDELPMETEDEIAAAYEELYGPAYAGVSVL 121
I F + +NPDE+ FDPP PE Y PP + DE P E+E+EIA AYEELYG AY+G S+L
Sbjct: 64 ITFFEQDNPDEEI-TFDPPEKPEGYIPPRAVDEPPFESEEEIALAYEELYGAAYSGESLL 122
Query: 122 GNDVYVMDSKAKKTSAFG-KTKKEKVKDGFEERVVQVRRVTKVVKGGKQLKFRAIVVVGD 180
GNDVY MDSK KK + FG K+KKEK++DGFEE VVQVRRVTKVVKGGK ++FRAIVVVGD
Sbjct: 123 GNDVYAMDSKIKKATGFGSKSKKEKIRDGFEENVVQVRRVTKVVKGGKHMRFRAIVVVGD 182
Query: 181 KKGQVGVGVAKAKEVIAAVQKSAVDARRNIVTVPMTKYLTFPHRSDGDFGAAKVMLRPAS 240
KKGQVGVGV KAKEV++AVQK+AVDARRNI+TVPMTKYLTFPHR++ D+GAA+VMLRPA+
Sbjct: 183 KKGQVGVGVGKAKEVVSAVQKAAVDARRNIITVPMTKYLTFPHRNEADYGAARVMLRPAA 242
Query: 241 PGTGVIAGGAVRIVLEMAGVENALGKQLGSNNALNNARATVVAVQKMKQWREVSRERGIP 300
PGTGVIAGGAVR VLEMAGVENALGKQLGSNNALNNARAT+VAVQ M+Q+ +V+R+RGIP
Sbjct: 243 PGTGVIAGGAVRTVLEMAGVENALGKQLGSNNALNNARATIVAVQTMRQFSDVARDRGIP 302
Query: 301 MEELWK 306
MEELWK
Sbjct: 303 MEELWK 308
>2vqe_E 30S ribosomal protein S5; tRNA-binding, rRNA-binding,
metal-binding, zinc-finger, translation; HET: TM2 PAR;
2.5A {Thermus thermophilus} SCOP: i.1.1.3 PDB: 1fka_E
1gix_H* 1hnw_E* 1hnx_E* 1hnz_E* 1hr0_E 1ibk_E* 1ibl_E*
1ibm_E 1jgo_H* 1jgp_H* 1jgq_H* 1ml5_H* 1xmo_E* 1xmq_E*
1xnq_E* 1xnr_E* 1yl4_H 2b64_E* 2b9m_E* ...
Length = 162
Score = 215 bits (549), Expect = 1e-70
Identities = 71/158 (44%), Positives = 108/158 (68%), Gaps = 1/158 (0%)
Query: 147 KDGFEERVVQVRRVTKVVKGGKQLKFRAIVVVGDKKGQVGVGVAKAKEVIAAVQKSAVDA 206
+ FEE+++ +RR ++ GG++ +F A+VVVGD++G+VG+G KA EV AVQK+ A
Sbjct: 3 ETDFEEKMILIRRTARMQAGGRRFRFGALVVVGDRQGRVGLGFGKAPEVPLAVQKAGYYA 62
Query: 207 RRNIVTVPMTKYLTFPHRSDGDFGAAKVMLRPASPGTGVIAGGAVRIVLEMAGVENALGK 266
RRN+V VP+ T PH + +FGA+K++L+PA+PGTGVIAG R +LE+AGV + L K
Sbjct: 63 RRNMVEVPLQNG-TIPHEIEVEFGASKIVLKPAAPGTGVIAGAVPRAILELAGVTDILTK 121
Query: 267 QLGSNNALNNARATVVAVQKMKQWREVSRERGIPMEEL 304
+LGS N +N A AT+ A+++++ +V R R
Sbjct: 122 ELGSRNPINIAYATMEALRQLRTKADVERLRKGEAHAQ 159
>3i1m_E 30S ribosomal protein S5; ribosome structure, protein-RNA complex,
ribonucleoprotein, ribosomal protein, RNA-binding,
rRNA-binding, antibiotic resistance; 3.19A {Escherichia
coli k-12} PDB: 1vs7_E* 1vs5_E 3i1o_E 3i1q_E 3i1s_E
3i1z_E 3i21_E 3izv_I* 3izw_I* 3kc4_E 3or9_E 3ora_E
3sfs_E* 3uoq_E*
Length = 167
Score = 214 bits (548), Expect = 2e-70
Identities = 72/164 (43%), Positives = 101/164 (61%), Gaps = 1/164 (0%)
Query: 142 KKEKVKDGFEERVVQVRRVTKVVKGGKQLKFRAIVVVGDKKGQVGVGVAKAKEVIAAVQK 201
EK +E+++ V RV+K VKGG+ F A+ VVGD G+VG G KA+EV AA+QK
Sbjct: 3 HIEKQAGELQEKLIAVNRVSKTVKGGRIFSFTALTVVGDGNGRVGFGYGKAREVPAAIQK 62
Query: 202 SAVDARRNIVTVPMTKYLTFPHRSDGDFGAAKVMLRPASPGTGVIAGGAVRIVLEMAGVE 261
+ ARRN++ V + T H G ++V ++PAS GTG+IAGGA+R VLE+AGV
Sbjct: 63 AMEKARRNMINVALNNG-TLQHPVKGVHTGSRVFMQPASEGTGIIAGGAMRAVLEVAGVH 121
Query: 262 NALGKQLGSNNALNNARATVVAVQKMKQWREVSRERGIPMEELW 305
N L K GS N +N RAT+ ++ M V+ +RG +EE+
Sbjct: 122 NVLAKAYGSTNPINVVRATIDGLENMNSPEMVAAKRGKSVEEIL 165
>3r8n_E 30S ribosomal protein S5; protein biosynthesis, RNA, tRNA, transfer
RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia
coli} PDB: 2ykr_E 3fih_E* 3iy8_E 2wwl_E 3oar_E 3oaq_E
3ofb_E 3ofa_E 3ofp_E 3ofx_E 3ofy_E 3ofo_E 3r8o_E 4a2i_E
2qal_E* 1p6g_E 1p87_E 2aw7_E 2avy_E 2i2u_E ...
Length = 150
Score = 205 bits (525), Expect = 3e-67
Identities = 68/149 (45%), Positives = 95/149 (63%), Gaps = 1/149 (0%)
Query: 150 FEERVVQVRRVTKVVKGGKQLKFRAIVVVGDKKGQVGVGVAKAKEVIAAVQKSAVDARRN 209
+E+++ V RV+K VKGG+ F A+ VVGD G+VG G KA+EV AA+QK+ ARRN
Sbjct: 2 LQEKLIAVNRVSKTVKGGRIFSFTALTVVGDGNGRVGFGYGKAREVPAAIQKAMEKARRN 61
Query: 210 IVTVPMTKYLTFPHRSDGDFGAAKVMLRPASPGTGVIAGGAVRIVLEMAGVENALGKQLG 269
++ V + T H G ++V ++PAS GTG+IAGGA+R VLE+AGV N L K G
Sbjct: 62 MINVALNNG-TLQHPVKGVHTGSRVFMQPASEGTGIIAGGAMRAVLEVAGVHNVLAKAYG 120
Query: 270 SNNALNNARATVVAVQKMKQWREVSRERG 298
S N +N RAT+ ++ M V+ +RG
Sbjct: 121 STNPINVVRATIDGLENMNSPEMVAAKRG 149
>1pkp_A Ribosomal protein S5; 2.80A {Geobacillus stearothermophilus} SCOP:
d.14.1.1 d.50.1.2 PDB: 1eg0_B 1dv4_E* 1qd7_D
Length = 150
Score = 201 bits (515), Expect = 1e-65
Identities = 74/147 (50%), Positives = 101/147 (68%), Gaps = 1/147 (0%)
Query: 142 KKEKVKDGFEERVVQVRRVTKVVKGGKQLKFRAIVVVGDKKGQVGVGVAKAKEVIAAVQK 201
+ K EERVV V RV KVVKGG++L+F A+VVVGDK G VG G KA+EV A++K
Sbjct: 3 RINPNKLELEERVVAVNRVAKVVKGGRRLRFSALVVVGDKNGHVGFGTGKAQEVPEAIRK 62
Query: 202 SAVDARRNIVTVPMTKYLTFPHRSDGDFGAAKVMLRPASPGTGVIAGGAVRIVLEMAGVE 261
+ DA++N++ VP+ T PH G FGA +++L+PAS GTGVIAGG R VLE+AG+
Sbjct: 63 AIEDAKKNLIEVPIVGT-TIPHEVIGHFGAGEIILKPASEGTGVIAGGPARAVLELAGIS 121
Query: 262 NALGKQLGSNNALNNARATVVAVQKMK 288
+ L K +GSN +N RAT ++++K
Sbjct: 122 DILSKSIGSNTPINMVRATFDGLKQLK 148
>3u5c_C Guanine nucleotide-binding protein subunit beta-L protein (ASC1,
RACK1); translation, ribosome, ribosomal, ribosomal R
ribosomal protein, eukaryotic ribosome, RNA-protein C;
3.00A {Saccharomyces cerevisiae} PDB: 3izb_E 3o30_B
3o2z_B 3u5g_C 3jyv_E* 1s1h_E
Length = 254
Score = 170 bits (433), Expect = 5e-52
Identities = 47/166 (28%), Positives = 89/166 (53%), Gaps = 10/166 (6%)
Query: 149 GFEERVVQVRRVTKVVKGGKQLKFRAIVVVGDKKGQVGVGVAKAKEVIAAVQKSAVDARR 208
G ++ V+ ++ V K + G++ +F+A+VVVGD G VG+G+ AKEV A++ + A+
Sbjct: 75 GLQDEVMNIKPVQKQTRAGQRTRFKAVVVVGDSNGHVGLGIKTAKEVAGAIRAGIIIAKL 134
Query: 209 NIVTVPM-------TKYLTFPHRSDGDFGAAKVMLRPASPGTGVIAGGAVRIVLEMAGVE 261
+++ + + + ++ G G+ V L PA G+G++A AV+ +L++AGVE
Sbjct: 135 SVIPIRRGYWGTNLGQPHSLATKTTGKCGSVTVRLIPAPRGSGIVASPAVKKLLQLAGVE 194
Query: 262 NALGKQLGSNNALNN-ARATVVAVQKMKQWR--EVSRERGIPMEEL 304
+ + G L N +A VA+ + + E+ +P+ L
Sbjct: 195 DVYTQSNGKTRTLENTLKAAFVAIGNTYGFLTPNLWAEQPLPVSPL 240
>3iz6_E 40S ribosomal protein S2 (S5P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
2zkq_e 1s1h_E
Length = 274
Score = 166 bits (423), Expect = 2e-50
Identities = 48/163 (29%), Positives = 81/163 (49%), Gaps = 8/163 (4%)
Query: 149 GFEERVVQVRRVTKVVKGGKQLKFRAIVVVGDKKGQVGVGVAKAKEVIAAVQKSAVDARR 208
G ++ V+++ V K + G++ +F+A VVVGD G VG+GV AKEV A++ + + A+
Sbjct: 84 GLKDEVMKITPVQKQTRAGQRTRFKAFVVVGDNNGHVGLGVKCAKEVATAIRGAIILAKL 143
Query: 209 NIVTVPMTKYL-------TFPHRSDGDFGAAKVMLRPASPGTGVIAGGAVRIVLEMAGVE 261
++V V + T P + G G+ V + PA G+G++A + VL+ AG+E
Sbjct: 144 SVVPVRRGYWGNKIGQPHTVPCKVTGKCGSVTVRMVPAPRGSGIVAARVPKKVLQFAGIE 203
Query: 262 NALGKQLGSNNALNN-ARATVVAVQKMKQWREVSRERGIPMEE 303
+ GS L N +AT + K + R +
Sbjct: 204 DVFTSSRGSTKTLGNFVKATFDCLMKTYGFLTPDFWRDTKFVK 246
>2xzm_E Ribosomal protein S5 containing protein; ribosome, translation;
3.93A {Tetrahymena thermophila} PDB: 2xzn_E
Length = 296
Score = 156 bits (395), Expect = 6e-46
Identities = 47/162 (29%), Positives = 79/162 (48%), Gaps = 8/162 (4%)
Query: 138 FGKTKKEKVKDGFEERVVQVRRVTKVVKGGKQLKFRAIVVVGDKKGQVGVGVAKAKEVIA 197
+ K K + + E V+Q+ V K + G++ +F+ VVVGD G +G+G AKEV
Sbjct: 65 YPKNKDVQAEHKLMEEVLQITPVQKQTQAGQRTRFKGFVVVGDSNGHIGLGWKVAKEVQG 124
Query: 198 AVQKSAVDARRNIVTVPMTKYL-------TFPHRSDGDFGAAKVMLRPASPGTGVIAGGA 250
A++ + A+ N+V V + T P + G G+ ++ L PA GTG++A
Sbjct: 125 AIKGAITHAKLNMVPVRKGYWGNKIANAHTIPQKITGKSGSVRIRLVPAPRGTGIVAAPI 184
Query: 251 VRIVLEMAGVENALGKQLGSNNALNN-ARATVVAVQKMKQWR 291
+ VL+ AGV++ G N +AT A+ ++
Sbjct: 185 PKKVLQFAGVQDIYTSSQGCTRTRGNFLKATYYALANTYRYL 226
>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 = 44.7 bits (105), Expect = 3e-05
Identities = 56/325 (17%), Positives = 95/325 (29%), Gaps = 137/325 (42%)
Query: 23 SLHSTPRLSFLSTAKLTRLPKLTLSTVLVRASESDK--PNGIVFDDF-NNPDEDAAVFDP 79
L+ T + L + TLS ++ +++K G+ ++ NP
Sbjct: 175 DLYQTYH-VLVGD--LIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPS-------- 223
Query: 80 PTPPEDY--TPPPSFDELPMETEDEIAAAYEELYGPAYAGVSVLGNDVYVMDSKAKKTSA 137
TP +DY + P S P+ I GV L + YV+ +K
Sbjct: 224 NTPDKDYLLSIPISC---PL-----I-------------GVIQLAH--YVVTAK-----L 255
Query: 138 FGKTKKEKVKDGFEERVVQVRRVTKVVKGGKQLKFRAIVVVGDKKGQVGVGVAKAKEVIA 197
G T E ++ ++ T +G +V A A IA
Sbjct: 256 LGFTPGE-LRS-------YLKGATGHSQG--------LV------------TAVA---IA 284
Query: 198 AVQKSAVDARRNIVTVPMTKYL---------TFPHRS----------DGDFGAAKVMLRP 238
S ++ L +P+ S + + G ML
Sbjct: 285 ET-DSWESFFVSVRK--AITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPML-- 339
Query: 239 ASPGTGVIAGGAVRIVLEMAGVENALGK---QLGSNNAL-----NNARATVVA------- 283
I+ L V++ + K L + + N A+ VV+
Sbjct: 340 ------SISN------LTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLY 387
Query: 284 -----VQKMK------QWREVSRER 297
++K K Q R ER
Sbjct: 388 GLNLTLRKAKAPSGLDQSRIPFSER 412
Score = 42.7 bits (100), Expect = 1e-04
Identities = 41/296 (13%), Positives = 73/296 (24%), Gaps = 134/296 (45%)
Query: 62 IVFDDFNNPDEDAAVFDPPTPP---EDYTP-------------PPSFDELPMET------ 99
IV NNP F E+Y+ F E+ +
Sbjct: 1664 IVI---NNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFR 1720
Query: 100 --EDEI--------A------AAYEEL-------YGPAYAGVSVLGNDVY--------VM 128
+ + A AA+E+L +AG S LG Y VM
Sbjct: 1721 SEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHS-LGE--YAALASLADVM 1777
Query: 129 DSKAKKTSAFGKTKKEKVKDGFEE--RVVQVRRVTKVVKGGKQLKFRAIVVVGDKKGQVG 186
E VV R G + V D+ G+
Sbjct: 1778 S--------------------IESLVEVVFYR--------GM---TMQVAVPRDELGRSN 1806
Query: 187 VGVAKAKEVIAAVQKSAV------DARRNIV-TVPMTKYLTFPHRSDGDFGAAKVMLRPA 239
G + A+ V +A + +V V + G +
Sbjct: 1807 YG-------MIAINPGRVAASFSQEALQYVVERV---------GKRTGWL------VEIV 1844
Query: 240 ---SPGTGVIAGGAVRIVLEMAGVENALGKQLGSNNALN--NARATV-VAVQKMKQ 289
+A G ++ ++ + L +++++++
Sbjct: 1845 NYNVENQQYVAAG------DLRALD-TVTNVLNFIKLQKIDIIELQKSLSLEEVEG 1893
Score = 41.2 bits (96), Expect = 3e-04
Identities = 64/386 (16%), Positives = 104/386 (26%), Gaps = 153/386 (39%)
Query: 6 SATRATLSSLSSLSLSLSLH---------------STPRLSFLSTAKLTRLPKLTLS--- 47
+ TLS L +L +TP +L + ++ P + +
Sbjct: 189 KFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPIS-CPLIGVIQLA 247
Query: 48 --TVLVRASESDKPN-------------GIV----------FDDFNNPDEDA--AVF--- 77
V + G+V ++ F A +F
Sbjct: 248 HYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIG 307
Query: 78 -----------DPPTPPEDYTP----PPSFDELPM---------ETEDEIAAAYEELYGP 113
PP+ ED PS PM + +D + L P
Sbjct: 308 VRCYEAYPNTSLPPSILEDSLENNEGVPS----PMLSISNLTQEQVQDYVNKTNSHL--P 361
Query: 114 AYAGVSV-LGN------------DVYVMDSKAKKTSAFGKTKKEKVKDGFEER--VVQVR 158
A V + L N +Y ++ +K A + ++ F ER R
Sbjct: 362 AGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIP--FSERKLKFSNR 419
Query: 159 --------------RVTKVVKG---GKQLKFRA----IVV--VGDKKGQVGVGVAKAKEV 195
+ ++ + F A I V D G +
Sbjct: 420 FLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFD-----GSDLRVLSGS 474
Query: 196 IAAVQKSAVDARRNIVTVPM----------TKYLTF-PHRSDGDFGAAKVMLRPASPGTG 244
I+ + VD I+ +P+ T L F P G G + R GTG
Sbjct: 475 IS---ERIVDC---IIRLPVKWETTTQFKATHILDFGP---GGASGLGVLTHRNKD-GTG 524
Query: 245 --VIAGGAVRIVLEMAGVENALG-KQ 267
VI G + ++ G KQ
Sbjct: 525 VRVIVAGTLD-----INPDDDYGFKQ 545
>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 = 36.4 bits (83), Expect = 0.012
Identities = 40/337 (11%), Positives = 86/337 (25%), Gaps = 101/337 (29%)
Query: 57 DKPNGIV---FDDFNNPDED------AAVFDPPTPPED---------YTPPPSFDELPM- 97
K +V ++ + P+ Y F + +
Sbjct: 73 SKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVS 132
Query: 98 --ETEDEIAAAYEEL--------YGPAYAGVSVLGNDVYVMDSKAKKTSAF-------GK 140
+ ++ A EL G +G + + DV + K + F
Sbjct: 133 RLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDV-CLSYKVQCKMDFKIFWLNLKN 191
Query: 141 TKKE------------KVKDGFEERV---VQVRRVTKVVKGGKQLKF------RAIVV-- 177
++ + R ++ ++ + ++V
Sbjct: 192 CNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL 251
Query: 178 -VGDKKGQVGVGVAKA-----KEVIAAVQKSAVDA-----RRNIVTVPMTKYLTFPHRSD 226
V + K A K ++ K D +I + LT P
Sbjct: 252 NVQNAK------AWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT-PDEVK 304
Query: 227 GDFGAAKVM------LRPASPGTG--VIAGGAVRIVLEMAGVENALGKQLGSNNALNNAR 278
K + L T ++ A I +A +N K + + L
Sbjct: 305 SLL--LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNW--KHVN-CDKLTTII 359
Query: 279 ATVVAVQKMKQWREVSRERG-------IP---MEELW 305
+ + V + ++R++ IP + +W
Sbjct: 360 ESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIW 396
Score = 32.9 bits (74), Expect = 0.14
Identities = 26/179 (14%), Positives = 46/179 (25%), Gaps = 47/179 (26%)
Query: 25 HSTPRLSFLSTAK--LTRL---PKLTLS-------TVLVRASESDK------PNGIVFDD 66
++ RL + L L + + T + I + +
Sbjct: 129 YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLN 188
Query: 67 FNNPDEDAAV----------FDPP-TPPEDYTPPPSFDELPMETEDEIAAAYEELYGPAY 115
N + V DP T D++ + A L Y
Sbjct: 189 LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI-----KLRIHSIQAELRRLLKSKPY 243
Query: 116 A-GVSVLGNDVYVMDSKAKKTSAFG---K----TKKEKVKDGFEERVVQVRRVTKVVKG 166
+ VL +V ++KA AF K T+ ++V D +
Sbjct: 244 ENCLLVL-LNVQ--NAKAWN--AFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT 297
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.5 bits (68), Expect = 0.44
Identities = 7/20 (35%), Positives = 14/20 (70%), Gaps = 3/20 (15%)
Query: 285 QKMKQWREVSRERGIPMEEL 304
+ +++WRE R+R ++EL
Sbjct: 85 ESIRKWREEQRKR---LQEL 101
>3p0w_A Mandelate racemase/muconate lactonizing protein; structural
genomics, PSI-2, protein structure initiative; HET: GKR;
1.71A {Ralstonia pickettii} PDB: 3nxl_A
Length = 470
Score = 30.6 bits (69), Expect = 0.57
Identities = 21/108 (19%), Positives = 36/108 (33%), Gaps = 11/108 (10%)
Query: 173 RAIVVVGDKKGQVGVGVAKAKEVIAAVQKSAVD-------ARRNIVTVPMTKYLTFPHRS 225
R +V++ D G+ GVG E I + + R N V + + L +
Sbjct: 38 RNLVILKDNAGRTGVGEVPGGEGIRQALERVIPLVVGQSIGRTNGVLSSIRRALAGGGNA 97
Query: 226 DGDFGAAKVMLRPASPGTGVIAGGAVRIVLEMAGVENAL----GKQLG 269
+V + +R+ + VE AL G+ L
Sbjct: 98 AHQATVHQVTSASEAAVLRQPHEINLRMDNVITAVEAALLDLLGQFLE 145
>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein,
neurite growth regulation; HET: NAG BMA; 2.00A {Mus
musculus}
Length = 361
Score = 30.2 bits (68), Expect = 0.74
Identities = 11/37 (29%), Positives = 15/37 (40%), Gaps = 1/37 (2%)
Query: 12 LSSLSSLSLSL-SLHSTPRLSFLSTAKLTRLPKLTLS 47
++ L L LS + P KL +L L LS
Sbjct: 135 MAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLS 171
>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 = 29.1 bits (64), Expect = 0.94
Identities = 9/25 (36%), Positives = 13/25 (52%), Gaps = 3/25 (12%)
Query: 14 SLSSLSLSLSLH---STPRLSFLST 35
+L L SL L+ S P L+ +T
Sbjct: 21 ALKKLQASLKLYADDSAPALAIKAT 45
>1ntl_A CRRY-IG; immunology, complement, glycoprotein, SCR, CCP, immune
system; NMR {Mus musculus}
Length = 551
Score = 28.5 bits (63), Expect = 3.6
Identities = 6/21 (28%), Positives = 11/21 (52%)
Query: 79 PPTPPEDYTPPPSFDELPMET 99
P P+ YT PP +++ +
Sbjct: 446 RPKAPQLYTIPPPKEQMAKDK 466
>3d3y_A Uncharacterized protein; APC29635, conserved protein, enterococcus
faecalis V583, STR genomics, PSI-2, protein structure
initiative; 1.95A {Enterococcus faecalis}
Length = 425
Score = 28.0 bits (63), Expect = 4.1
Identities = 13/74 (17%), Positives = 22/74 (29%), Gaps = 12/74 (16%)
Query: 53 ASESDKPNGIVFDDFNNPDEDAAVFDPPTP---PEDYTPPPSFDELPMETEDEIAAAYEE 109
S + + F+ P T L ET +AA Y++
Sbjct: 144 ESIVEDKQTYASLALQ-----SVYFNQSEDQKIPSFGTV----AALAEETAASLAAYYQK 194
Query: 110 LYGPAYAGVSVLGN 123
+ + VLG+
Sbjct: 195 MLAEDQVDIFVLGD 208
>1ms9_A Trans-sialidase; trans-glycosylation, protein-acrbohydrate interac
beta-propeller, hydrolase; HET: LAT; 1.58A {Trypanosoma
cruzi} SCOP: b.29.1.15 b.68.1.1 PDB: 1ms0_A* 1mr5_A*
1ms1_A 1ms4_A 1ms8_A* 1ms3_A* 2ah2_A* 3b69_A* 3opz_A
3pjq_A* 1s0i_A* 1s0j_A* 1ms5_A 1wcs_A 2ags_A* 2a75_A*
2fhr_A* 1n1t_A* 1n1s_A* 1n1v_A* ...
Length = 648
Score = 27.9 bits (61), Expect = 5.6
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 122 GNDVYVMDSKAKKTSAFGKTKKEKV--KDGFEERVVQVRRVTKVVKGGK 168
D ++D+ AK + G+T + ++ K+ V +V T +VKG K
Sbjct: 71 SFDNSLIDTVAKYSVDDGETWETQIAIKNSRASSVSRVVDPTVIVKGNK 119
>3ats_A Putative uncharacterized protein; hypothetical protein, putative
aminoglycoside phosphortransf transferase; 1.67A
{Mycobacterium tuberculosis} PDB: 3att_A*
Length = 357
Score = 27.3 bits (61), Expect = 6.1
Identities = 12/70 (17%), Positives = 23/70 (32%), Gaps = 23/70 (32%)
Query: 62 IVFDDFNNPDEDAAVFD-------PP-----------TPPEDYTPPPSFDELP-METEDE 102
+++ + AV D P ++ + LP + ED+
Sbjct: 234 VLYR----DFQPVAVLDWEMVALGPRELDVAWMIFAHRVFQELAGLATLPGLPEVMREDD 289
Query: 103 IAAAYEELYG 112
+ A Y+ L G
Sbjct: 290 VRATYQALTG 299
>3amj_B Zinc peptidase inactive subunit; alpha/beta, zinc binding,
hydrolase; 3.00A {Sphingomonas}
Length = 424
Score = 27.2 bits (61), Expect = 7.3
Identities = 17/127 (13%), Positives = 38/127 (29%), Gaps = 14/127 (11%)
Query: 53 ASESDKPNGIVFDDFNNPDEDAAVFDPPTPPEDYTPPPSFDELPMETEDEIAAAYEELYG 112
+P I+ F + P Y S L + D++ + + Y
Sbjct: 136 REAQTQPGSILGRRFT-----ELAY-GKHP---YGHVSSVATLQKISRDQLVSFHRTHYV 186
Query: 113 PAYAGVSVLGNDVYVMDSKAKKTSAFGKTKKEKVKDGFEERVVQVRRVTKVVKGGKQLKF 172
A V+++G D+ +++ + + V ++ Q
Sbjct: 187 ARTAVVTLVG-DITRAEAETIAQQLTADLPAGATLPPLPDPAMPRATVERIANPATQ--- 242
Query: 173 RAIVVVG 179
A + +G
Sbjct: 243 -AHIAIG 248
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
0.313 0.129 0.359
Gapped
Lambda K H
0.267 0.0720 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,756,645
Number of extensions: 317411
Number of successful extensions: 853
Number of sequences better than 10.0: 1
Number of HSP's gapped: 844
Number of HSP's successfully gapped: 42
Length of query: 306
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 213
Effective length of database: 4,105,140
Effective search space: 874394820
Effective search space used: 874394820
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 (21.9 bits)
S2: 57 (25.8 bits)