RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254781108|ref|YP_003065521.1| von Willebrand factor type A
[Candidatus Liberibacter asiaticus str. psy62]
(398 letters)
>2odp_A Complement C2; C3/C5 convertase, complement serine protease, human
complement system, glycoprotein, SP, VWFA, hydrolase;
HET: NAG; 1.90A {Homo sapiens} PDB: 2odq_A* 2i6q_A*
2i6s_A*
Length = 509
Score = 59.5 bits (143), Expect = 1e-09
Identities = 37/197 (18%), Positives = 80/197 (40%), Gaps = 19/197 (9%)
Query: 208 RKIDVLIESAGNLVNSIQKAIQEKKNLSVRIGTIAYN--IGIVGNQCTPLSNNLNEVKSR 265
+ ESA +V+ I ++V + I + ++ + S ++ EV S
Sbjct: 25 NDFLIFKESASLMVDRIFSF-----EINVSVAIITFASEPKVLMSVLNDNSRDMTEVISS 79
Query: 266 LNKLNPYE-----NTNTYPAMHHAYRELYNEKESS-HNTIGSTRLKKFVIFITDGENSGA 319
L N + TNTY A++ Y + N+ T+ ++ +I +TDG+++
Sbjct: 80 LENANYKDHENGTGTNTYAALNSVYLMMNNQMRLLGMETMAWQEIRHAIILLTDGKSNMG 139
Query: 320 SAYQNTLNTLQICEYM---RNAGMKIYSVAVSAPPEGQDLLRKC---TDSSGQFFAVNDS 373
+ + ++ ++ + RN + IY++ V L + D F + D+
Sbjct: 140 GSPKTAVDHIREILNINQKRNDYLDIYAIGVGKLDVDWRELNELGSKKDGERHAFILQDT 199
Query: 374 RELLESFDKITDKIQEQ 390
+ L + F+ + D +
Sbjct: 200 KALHQVFEHMLDVSKLT 216
>3hrz_D Complement factor B; serine protease, glycosilated, multi-domain,
complement system, convertase, complement alternate
pathway, complement pathway; HET: NAG P6G; 2.20A {Homo
sapiens} PDB: 3hs0_D* 2ok5_A*
Length = 741
Score = 56.4 bits (135), Expect = 1e-08
Identities = 34/180 (18%), Positives = 62/180 (34%), Gaps = 18/180 (10%)
Query: 235 SVRIGTIAYN--IGIVGNQCTPLSNNLNEVKSRLNKLNPYE-----NTNTYPAMHHAYRE 287
R G + Y I S+N + V +LN++N + TNT A+ Y
Sbjct: 281 KPRYGLVTYATYPKIWVKVSEADSSNADWVTKQLNEINYEDHKLKSGTNTKKALQAVYSM 340
Query: 288 LYNEKESSHNTIGSTRLKKFVIFITDGE-------NSGASAYQNTLNTLQICEYMRNAGM 340
+ + G R + +I +TDG + ++ L + + R +
Sbjct: 341 MSWPDD--VPPEGWNRTRHVIILMTDGLHNMGGDPITVIDEIRDLLYIGKDRKNPREDYL 398
Query: 341 KIYSVAVSAPPEGQDLLR--KCTDSSGQFFAVNDSRELLESFDKITDKIQEQSVRIAPNR 398
+Y V ++ D+ F V D L + F ++ D+ Q S+
Sbjct: 399 DVYVFGVGPLVNQVNINALASKKDNEQHVFKVKDMENLEDVFYQMIDESQSLSLCGMVWE 458
>1n3y_A Integrin alpha-X; alpha/beta rossmann fold, cell adhesion; 1.65A
{Homo sapiens} SCOP: c.62.1.1
Length = 198
Score = 53.7 bits (128), Expect = 8e-08
Identities = 29/172 (16%), Positives = 65/172 (37%), Gaps = 16/172 (9%)
Query: 222 NSIQKAIQEKKNLSVRIGTIAYNIGIVGNQCTPLSNNLNEVKSRLNKLN-PYENTNTYPA 280
N ++ I + + S + + ++ + + S L ++ T T A
Sbjct: 32 NFVRAVISQFQRPSTQFSLMQFSNKFQTHFTFEEFRRSSNPLSLLASVHQLQGFTYTATA 91
Query: 281 MHHAYRELYNEKESSHNTIGSTRLKKFVIFITDGENSGASAYQNTLNTLQICEYMRNAGM 340
+ + L++ + K +I ITDG+ G ++L+ + AG+
Sbjct: 92 IQNVVHRLFHASYGARRDA-----AKILIVITDGKKEG-----DSLDYKDVIPMADAAGI 141
Query: 341 KIYSVAVSAPPEGQDLLRKCTD-----SSGQFFAVNDSRELLESFDKITDKI 387
Y++ V + ++ ++ D S F V D L + +++ +KI
Sbjct: 142 IRYAIGVGLAFQNRNSWKELNDIASKPSQEHIFKVEDFDALKDIQNQLKEKI 193
>1mf7_A Integrin alpha M; cell adhesion; 1.25A {Homo sapiens} SCOP:
c.62.1.1 PDB: 1na5_A 1jlm_A 1ido_A 1m1u_A 1n9z_A 1bhq_1
1bho_1 1idn_1
Length = 194
Score = 51.0 bits (121), Expect = 4e-07
Identities = 28/172 (16%), Positives = 56/172 (32%), Gaps = 16/172 (9%)
Query: 222 NSIQKAIQEKKNLSVRIGTIAYNIGIVGNQCTPLSNNLNEVKSRLNKLN-PYENTNTYPA 280
+ +++ K + Y+ + N +S + + T+T
Sbjct: 28 EFVSTVMEQLKKSKTLFSLMQYSEEFRIHFTFKEFQNNPNPRSLVKPITQLLGRTHTATG 87
Query: 281 MHHAYRELYNEKESSHNTIGSTRLKKFVIFITDGENSGASAYQNTLNTLQICEYMRNAGM 340
+ REL+N + K ++ ITDGE G + L + G+
Sbjct: 88 IRKVVRELFNITNGARKNA-----FKILVVITDGEKFG-----DPLGYEDVIPEADREGV 137
Query: 341 KIYSVAV---SAPPEGQDLLRKCTDSSGQ--FFAVNDSRELLESFDKITDKI 387
Y + V + + L + F VN+ L +++ +KI
Sbjct: 138 IRYVIGVGDAFRSEKSRQELNTIASKPPRDHVFQVNNFEALKTIQNQLREKI 189
>1q0p_A Complement factor B; VON willebrand factor, MAC-1, I domain, A
domain, hydrolase; 1.80A {Homo sapiens} SCOP: c.62.1.1
Length = 223
Score = 46.8 bits (110), Expect = 9e-06
Identities = 37/200 (18%), Positives = 69/200 (34%), Gaps = 23/200 (11%)
Query: 208 RKIDVLIESAGNLVNSIQKAIQEKKNLSVRIGTIAY--NIGIVGNQCTPLSNNLNEVKSR 265
+S NL+ + + R G + Y I S+N + V +
Sbjct: 31 SNFTGAKKSLVNLIEKVASY-----GVKPRYGLVTYATYPKIWVKVSEADSSNADWVTKQ 85
Query: 266 LNKLNPYE-----NTNTYPAMHHAYRELYNEKESSHNTIGSTRLKKFVIFITDGEN---- 316
LN++N + TNT A+ Y + + G R + +I +TDG +
Sbjct: 86 LNEINYEDHKLKSGTNTKKALQAVYSMMSWPDDV--PPEGWNRTRHVIILMTDGLHNMGG 143
Query: 317 ---SGASAYQNTLNTLQICEYMRNAGMKIYSVAVSAPPEGQDLLR--KCTDSSGQFFAVN 371
+ ++ L + + R + +Y V ++ D+ F V
Sbjct: 144 DPITVIDEIRDLLYIGKDRKNPREDYLDVYVFGVGPLVNQVNINALASKKDNEQHVFKVK 203
Query: 372 DSRELLESFDKITDKIQEQS 391
D L + F ++ D+ Q S
Sbjct: 204 DMENLEDVFYQMIDESQSLS 223
>1pt6_A Integrin alpha-1; X-RAY diffraction, cell adhesion; 1.87A {Homo
sapiens} SCOP: c.62.1.1 PDB: 1qcy_A 1qc5_A 1qc5_B 1ck4_A
1mhp_A
Length = 213
Score = 45.9 bits (108), Expect = 2e-05
Identities = 29/201 (14%), Positives = 68/201 (33%), Gaps = 31/201 (15%)
Query: 208 RKIDV--LIESAGNLVNSIQKAIQEKKNL--SVRIGTIAYNIGIVGNQCTPL-------S 256
++D+ +++ + + + +L + IG +GIV
Sbjct: 6 TQLDIVIVLDGSNS-IYPWDSVTAFLNDLLKRMDIGPKQTQVGIVQYGENVTHEFNLNKY 64
Query: 257 NNLNEVKSRLNKLNPYENTNTYPAMHHAYRELYNEKESSHNTIGSTRLKKFVIFITDGEN 316
++ EV K+ T A+ E+ G KK ++ +TDGE+
Sbjct: 65 SSTEEVLVAAKKIVQRGGRQTMTALGTDTARKEAFTEARGARRGV---KKVMVIVTDGES 121
Query: 317 SGASAYQNTLNTLQICEYMRNAGMKIYSVAVSAPPEGQDLLRKCTD----------SSGQ 366
+ ++ + + ++ +S+A+ +L + +
Sbjct: 122 HDNHRLK------KVIQDCEDENIQRFSIAILGSYNRGNLSTEKFVEEIKSIASEPTEKH 175
Query: 367 FFAVNDSRELLESFDKITDKI 387
FF V+D L+ + ++I
Sbjct: 176 FFNVSDELALVTIVKTLGERI 196
>1ijb_A VON willebrand factor; dinucleotide-binding fold, blood clotting;
1.80A {Homo sapiens} SCOP: c.62.1.1 PDB: 1ijk_A 1auq_A
1u0n_A 3hxo_A 1uex_C 3hxq_A 1sq0_A 1m10_A 1fns_A 1oak_A
1u0o_C
Length = 202
Score = 44.1 bits (103), Expect = 5e-05
Identities = 18/176 (10%), Positives = 51/176 (28%), Gaps = 13/176 (7%)
Query: 214 IESAGNLVNSIQKAIQEKKNLSVRIGTIAYNIGIVGNQCTPLSNNLNEVKSRLNKLNPYE 273
E V + + ++ + VR+ + Y+ + + S L ++
Sbjct: 31 FEVLKAFVVDMMERLRVSQK-WVRVAVVEYH----DGSHAYIGLKDRKRPSELRRIASQV 85
Query: 274 NTNTYPAMHHAYRELYNEKESSHNTIGSTRLKKFVIFITDGENSGASAYQNTLNTLQICE 333
+ Y + + ++ + E S N ++ +
Sbjct: 86 KYAGSQVASTSEVLKYTLFQIFSKIDRPEASRIALLLMASQEPQRMSR-----NFVRYVQ 140
Query: 334 YMRNAGMKIYSVAVSAPPEGQDLLRKCTD--SSGQFFAVNDSRELLESFDKITDKI 387
++ + + V + +R + F ++ EL + D+I +
Sbjct: 141 GLKKKKVIVIPVGIGPHAN-LKQIRLIEKQAPENKAFVLSSVDELEQQRDEIVSYL 195
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 40.7 bits (95), Expect = 6e-04
Identities = 51/286 (17%), Positives = 83/286 (29%), Gaps = 140/286 (48%)
Query: 2 TAIIISVC-----FLFITY-----AIDLAHIMYI--RNQM---QSALDAAVLS-----GC 41
TA+ I+ F + AI + + +I R ++L ++L
Sbjct: 279 TAVAIAETDSWESF----FVSVRKAITV--LFFIGVRCYEAYPNTSLPPSILEDSLENNE 332
Query: 42 AS---IVSDRTIKDPTTKKDQTSTIFKKQIKKHLKQGSYIRENAGDIAQKAQINITKDKN 98
++S I + T ++Q++ ++ +K
Sbjct: 333 GVPSPMLS---ISNLT----------QEQVQDYV-----------------------NKT 356
Query: 99 NPLQYIAESKAQYEI-----PTENLFLKGLIPSALT--NLSLRSTGIIERSSENLAISIC 151
N ++ K Q EI NL + G P +L NL+LR + S
Sbjct: 357 N--SHLPAGK-QVEISLVNGAK-NLVVSGP-PQSLYGLNLTLRK---AKAPSG------- 401
Query: 152 MVLDVSR---SMEDLYLQKHNDNNNMTSNKYLLPPP---PKKSFWSKNTTKSKY-APAP- 203
LD SR S L SN++L P P F S PA
Sbjct: 402 --LDQSRIPFSERKLKF----------SNRFL---PVASP---F------HSHLLVPASD 437
Query: 204 ------APANRKI---DVLI------------ESAGNLVNSIQKAI 228
N D+ I +G++ I I
Sbjct: 438 LINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCI 483
Score = 39.2 bits (91), Expect = 0.002
Identities = 22/193 (11%), Positives = 54/193 (27%), Gaps = 68/193 (35%)
Query: 234 LSVRIGTIAYNIGIVGNQCTPLSNNLNEVKSRLNKLNPYENTNTYPAMHHAYRELY--NE 291
L++ G++ + + + + S+L + + P +E
Sbjct: 9 LTLSHGSLEHVL--------LVPTASFFIASQLQE----QFNKILPE---PTEGFAADDE 53
Query: 292 KESSHNTIGSTRLKKFVIFITDGENSGASAY-----QNTLNTLQICEYMRNAGMKIYSVA 346
+ +G KF+ +++ L + Y+ I+++A
Sbjct: 54 PTTPAELVG-----KFLGYVSSLVEPSKVGQFDQVLNLCLTEFE-NCYLEGND--IHALA 105
Query: 347 VSAPPEG-------QDLLR--------------KCTDS-------SGQF--FAV-----N 371
E ++L++ K ++S G A+ N
Sbjct: 106 AKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGN 165
Query: 372 DS---RELLESFD 381
EL + +
Sbjct: 166 TDDYFEELRDLYQ 178
Score = 33.8 bits (77), Expect = 0.079
Identities = 54/222 (24%), Positives = 92/222 (41%), Gaps = 62/222 (27%)
Query: 49 TIKDPTTKKDQTSTIFKKQIKKHLKQGSY-IRENAGDIAQKAQINITKDKNNPLQYIAES 107
TI D K +T IFK +I +H SY R ++K ++ T+ P + E
Sbjct: 1695 TIVD---GKLKTEKIFK-EINEH--STSYTFR------SEKGLLSATQ-FTQPALTLME- 1740
Query: 108 KAQYEIPTENLFLKGLIPSALT--NLSLRSTGIIERSSENLAI-SIC-------MVLDVS 157
KA +E +L KGLIP+ T SL + ++ ++I S+ M + V+
Sbjct: 1741 KAAFE----DLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVA 1796
Query: 158 RSMEDLYLQKHNDNNNMTS-N-------------KYLLPPPPKKSFW-----SKNTTKSK 198
++L N M + N +Y++ K++ W + N +
Sbjct: 1797 VPRDEL----GRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQ 1852
Query: 199 YAPAPAPANRKIDVLIESAGNLVNSI--QK--AIQEKKNLSV 236
Y A R +D + N++N I QK I+ +K+LS+
Sbjct: 1853 YVAAGDL--RALDTVT----NVLNFIKLQKIDIIELQKSLSL 1888
Score = 31.5 bits (71), Expect = 0.33
Identities = 37/190 (19%), Positives = 56/190 (29%), Gaps = 79/190 (41%)
Query: 245 IGIVGNQCTP------------LSNN-------LNEVK--SRLNKLNPY-ENTNTY-PAM 281
IG+ + P L NN L+ + ++ ++ Y TN++ PA
Sbjct: 306 IGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLS-ISNLTQ-EQVQDYVNKTNSHLPAG 363
Query: 282 HHAYRELYNEKESSHNTIGSTRLKKFVIFITDGENSG--ASAYQNTLNTLQICEYMRNAG 339
L N + N V+ SG S Y LN +R
Sbjct: 364 KQVEISLVN---GAKN---------LVV-------SGPPQSLY--GLNL-----TLRK-- 395
Query: 340 MKIYSVAVSAPPEGQDLLR--------KCTDSSGQFFAVN---DSRELLES-FDKITDKI 387
AP G D R K ++ +F V S LL D I +
Sbjct: 396 -------AKAPS-GLDQSRIPFSERKLKFSN---RFLPVASPFHS-HLLVPASDLINKDL 443
Query: 388 QEQSVRIAPN 397
+ +V
Sbjct: 444 VKNNVSFNAK 453
>1v7p_C Integrin alpha-2; snake venom, C-type lectin, antagonist, cell
adhesion, glycoprotein, toxin/cell adhesion complex;
HET: NAG; 1.90A {Homo sapiens} SCOP: c.62.1.1 PDB:
1aox_A 1dzi_A
Length = 200
Score = 39.5 bits (91), Expect = 0.001
Identities = 30/201 (14%), Positives = 68/201 (33%), Gaps = 35/201 (17%)
Query: 210 IDV--LIESAGNLVNSIQKAIQEKKNL--SVRIGTIAYNIGIVGNQCTP-------LSNN 258
IDV + + + + + + + IG +G++ P
Sbjct: 7 IDVVVVCDESNS-IYPWDAVKNFLEKFVQGLDIGPTKTQVGLIQYANNPRVVFNLNTYKT 65
Query: 259 LNEVKSRLNKLNPYENT--NTYPAMHHAYRELYNEKESSHNTIGSTRLKKFVIFITDGEN 316
E+ ++ + Y NT+ A+ +A + Y+ + K ++ +TDGE+
Sbjct: 66 KEEMIVATSQTSQYGGDLTNTFGAIQYARKYAYSAASGGRRSA-----TKVMVVVTDGES 120
Query: 317 SGASAYQNTLNTLQICEYMRNAGMKIYSVAVSA--------PPEGQDLLRKCTDSSGQ-- 366
S + + + + + + +AV ++ +
Sbjct: 121 HDGSMLK------AVIDQCNHDNILRFGIAVLGYLNRNALDTKNLIKEIKAIASIPTERY 174
Query: 367 FFAVNDSRELLESFDKITDKI 387
FF V+D LLE + ++I
Sbjct: 175 FFNVSDEAALLEKAGTLGEQI 195
>2b2x_A Integrin alpha-1; computational design, antibody-antigen complex,
immune system; 2.20A {Rattus norvegicus} SCOP: c.62.1.1
Length = 223
Score = 39.2 bits (90), Expect = 0.002
Identities = 32/210 (15%), Positives = 72/210 (34%), Gaps = 32/210 (15%)
Query: 200 APAPAPANRK-IDV--LIESAGNLVNSIQKAIQEKKNL--SVRIGTIAYNIGIVGNQCTP 254
+ AP +D+ +++ + + + + I +L + IG +GIV
Sbjct: 12 SFAPVQECSTQLDIVIVLDGSNS-IYPWESVIAFLNDLLKRMDIGPKQTQVGIVQYGENV 70
Query: 255 -------LSNNLNEVKSRLNKLNPYENTNTYPAMHHAYRELYNEKESSHNTIGSTRLKKF 307
++ EV NK+ T A+ E+ G +
Sbjct: 71 THEFNLNKYSSTEEVLVAANKIVQRGGRQTMTALGIDTARKEAFTEARGARRGVKK---V 127
Query: 308 VIFITDGENSGASAYQNTLNTLQICEYMRNAGMKIYSVAVSAPPEGQDLLRKCTD----- 362
++ +TDGE+ + Q+ + + ++ +S+A+ +L +
Sbjct: 128 MVIVTDGESHDNYRLK------QVIQDCEDENIQRFSIAILGHYNRGNLSTEKFVEEIKS 181
Query: 363 -----SSGQFFAVNDSRELLESFDKITDKI 387
+ FF V+D L+ + ++I
Sbjct: 182 IASEPTEKHFFNVSDELALVTIVKALGERI 211
>3k6s_A Integrin alpha-X; hetero dimer, cell receptor, adhesion molecule,
calcium, cell adhesion, disulfide bond, glycoprotein,
magnesium, membrane; HET: NAG MAN; 3.50A {Homo sapiens}
PDB: 3k71_A* 3k72_A*
Length = 1095
Score = 36.3 bits (83), Expect = 0.013
Identities = 29/174 (16%), Positives = 66/174 (37%), Gaps = 16/174 (9%)
Query: 220 LVNSIQKAIQEKKNLSVRIGTIAYNIGIVGNQCTPLSNNLNEVKSRLNKLNP-YENTNTY 278
++N ++ I + + S + + ++ + + S L ++ T T
Sbjct: 151 MMNFVRAVISQFQRPSTQFSLMQFSNKFQTHFTFEEFRRSSNPLSLLASVHQLQGFTYTA 210
Query: 279 PAMHHAYRELYNEKESSHNTIGSTRLKKFVIFITDGENSGASAYQNTLNTLQICEYMRNA 338
A+ + L++ K +I ITDG+ G ++L+ + A
Sbjct: 211 TAIQNVVHRLFHASYG-----ARRDAAKILIVITDGKKEG-----DSLDYKDVIPMADAA 260
Query: 339 GMKIYSVAVSAPPEGQDLLRKCTD-----SSGQFFAVNDSRELLESFDKITDKI 387
G+ Y++ V + ++ ++ D S F V D L + +++ +KI
Sbjct: 261 GIIRYAIGVGLAFQNRNSWKELNDIASKPSQEHIFKVEDFDALKDIQNQLKEKI 314
>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 = 32.3 bits (72), Expect = 0.22
Identities = 12/39 (30%), Positives = 16/39 (41%), Gaps = 12/39 (30%)
Query: 323 QNTLNTLQICEYMRNAGMKIYSVAVSAPPEGQDLLRKCT 361
+ L LQ A +K+Y+ SAP L K T
Sbjct: 19 KQALKKLQ-------ASLKLYA-DDSAPA----LAIKAT 45
>2xgg_A Microneme protein 2; A/I domain, cell adhesion, hydrolase; 2.05A
{Toxoplasma gondii}
Length = 178
Score = 32.1 bits (72), Expect = 0.26
Identities = 26/162 (16%), Positives = 48/162 (29%), Gaps = 26/162 (16%)
Query: 201 PAPAPANRKIDVLI---ESAGNLVNSIQKAIQEKKNL--SVRIGTIAYNIGIVGNQC--- 252
A ++D+ S + + + Q + IG N +V
Sbjct: 9 RGSAMGTNQLDICFLIDSSGSIGIQNFRLVKQFLHTFLMVLPIGPEEVNNAVVTYSTDVH 68
Query: 253 --TPLSNNLNEVKSRLNKLN-----PYENTNTYPAMHHAYRELYNEKESSHNTIGSTRLK 305
L + K +TNT + + L+ +
Sbjct: 69 LQWDLQSPNAVDKQLAAHAVLDMPYKKGSTNTSDGLKACKQILFTGSRPGREHV-----P 123
Query: 306 KFVIFITDGENSGASAYQNTLNTLQICEYMRNAGMKIYSVAV 347
K VI +TDGE+ T++ + +R G + +AV
Sbjct: 124 KLVIGMTDGESDSD------FRTVRAAKEIRELGGIVTVLAV 159
>1mjn_A Integrin alpha-L; rossmann fold, immune system; 1.30A {Escherichia
coli} SCOP: c.62.1.1 PDB: 3hi6_A 1mq8_B* 3eoa_I 3eob_I
1rd4_A* 1lfa_A 1zon_A 1zoo_A 1zop_A 1dgq_A 1xdd_A*
1xdg_A* 1xuo_A* 3e2m_A* 3bqn_B* 1cqp_A* 3bqm_B* 2ica_A*
2o7n_A* 3f78_A* ...
Length = 179
Score = 31.8 bits (71), Expect = 0.27
Identities = 27/191 (14%), Positives = 69/191 (36%), Gaps = 25/191 (13%)
Query: 209 KIDV--LIESAGNL-VNSIQKAIQEKKNLSVRIGTIAYNIGIVGNQCTP--------LSN 257
+D+ L + + +L + QK + K++ + +Y V +
Sbjct: 2 NVDLVFLFDGSMSLQPDEFQKILDFMKDVMKKCSNTSYQFAAVQFSTSYKTEFDFSDYVK 61
Query: 258 NLNEVKSRLNKLNPYENTNTYPAMHHAYRELYNEKESSHNTIGSTRLKKFVIFITDGENS 317
+ + + TNT+ A+++ E++ E+ + K +I ITDGE +
Sbjct: 62 RKDPDALLKHVKHMLLLTNTFGAINYVATEVFREELGARPDA-----TKVLIIITDGEAT 116
Query: 318 GASAYQNTLNTLQICEYMRNAGMKIYSVAVSAPPEGQDLLRKCTDSSGQF-FAVNDSREL 376
+ + + + + I + + L + + + +F ++ +L
Sbjct: 117 DSGN-------IDAAKDIIRYIIGIGKHFQTKESQET-LHKFASKPASEFVKILDTFEKL 168
Query: 377 LESFDKITDKI 387
+ ++ KI
Sbjct: 169 KDLCTELQKKI 179
>3da4_A Colicin-M; phosphatase, antibiotic, antimicrobial, bacteriocin,
plasmid, TONB box; 1.70A {Escherichia coli} PDB: 3da3_A
Length = 279
Score = 30.3 bits (68), Expect = 0.76
Identities = 12/61 (19%), Positives = 28/61 (45%), Gaps = 6/61 (9%)
Query: 91 INITKDKNNPLQYIAESKA--QYEIPTE---NLFLKGLIP-SALTNLSLRSTGIIERSSE 144
+ I+ K N ++ I +S + + T+ +I + L N++L++ G + S+
Sbjct: 153 LKISPMKINQIKDIIKSGVVGTFPVSTKFTHATGDYNVITGAYLGNITLKTEGTLTISAN 212
Query: 145 N 145
Sbjct: 213 G 213
>1rzh_H Reaction center protein H chain; bacterial photosynthesis, proton
transfer pathway, revertant, X-RAY crystallography; HET:
BCL BPH BPB U10 SPO LDA HTO CDL; 1.80A {Rhodobacter
sphaeroides} SCOP: b.41.1.1 f.23.10.1 PDB: 1e14_H*
1f6n_H* 1fnp_H* 1fnq_H* 1jgw_H* 1jgx_H* 1jgy_H* 1jgz_H*
1jh0_H* 1k6l_H* 1k6n_H* 1kby_H* 1l9b_H* 1l9j_H* 1m3x_H*
1mps_H* 1pcr_H* 1e6d_H* 1rg5_H* 1rgn_H* ...
Length = 260
Score = 30.1 bits (68), Expect = 1.0
Identities = 13/66 (19%), Positives = 23/66 (34%), Gaps = 9/66 (13%)
Query: 163 LYLQKHN---------DNNNMTSNKYLLPPPPKKSFWSKNTTKSKYAPAPAPANRKIDVL 213
YLQ N ++ +N+ P P K+F + + P P +R I +
Sbjct: 29 YYLQTENMREGYPLENEDGTPAANQGPFPLPKPKTFILPHGRGTLTVPGPESEDRPIALA 88
Query: 214 IESAGN 219
+
Sbjct: 89 RTAVSE 94
>2wwq_5 50S ribosomal protein L1; ribosomal protein, ribonucleoprotein,
nucleotide-binding, protein biosynthesis, translation,
zinc-finger; HET: 5MU; 5.80A {Escherichia coli} PDB:
3fik_5 3kcr_5 2rdo_9 2gya_2 2gyc_2
Length = 234
Score = 28.1 bits (62), Expect = 3.4
Identities = 17/66 (25%), Positives = 25/66 (37%), Gaps = 5/66 (7%)
Query: 218 GNLVNSIQKAIQEKKNLSVRI-----GTIAYNIGIVGNQCTPLSNNLNEVKSRLNKLNPY 272
G + ++ +A++ K VR G I IG V L NL + L K P
Sbjct: 143 GTVTPNVAEAVKNAKAGQVRYRNDKNGIIHTTIGKVDFDADKLKENLEALLVALKKAKPT 202
Query: 273 ENTNTY 278
+ Y
Sbjct: 203 QAKGVY 208
>3a2b_A Serine palmitoyltransferase; vitamin B6-dependent enzyme fold type
I, acyltransferase, pyridoxal phosphate; HET: PLP; 2.30A
{Sphingobacterium multivorum}
Length = 398
Score = 27.0 bits (59), Expect = 6.9
Identities = 10/67 (14%), Positives = 31/67 (46%), Gaps = 7/67 (10%)
Query: 328 TLQICEYMRNAGMKIYSVAVSAP--PEGQDLLRKCTDSSGQFFAVNDSRELLESFDKITD 385
T + + +++ G ++ V +P P + L+R ++ + + E +E K+
Sbjct: 336 TFWVTKMLQDDG--VFVNPVVSPAVPAEESLIRFSLMATHTY---DQIDEAIEKMVKVFK 390
Query: 386 KIQEQSV 392
+ + +++
Sbjct: 391 QAEVETL 397
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.314 0.129 0.359
Gapped
Lambda K H
0.267 0.0494 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 3,107,476
Number of extensions: 135619
Number of successful extensions: 398
Number of sequences better than 10.0: 1
Number of HSP's gapped: 395
Number of HSP's successfully gapped: 29
Length of query: 398
Length of database: 5,693,230
Length adjustment: 94
Effective length of query: 304
Effective length of database: 3,414,294
Effective search space: 1037945376
Effective search space used: 1037945376
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: 42 (22.0 bits)
S2: 58 (26.7 bits)